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• 1. [Article] Using Landsat TM Imagery to Monitor Vegetation Change Following Flow Restoration to the Lower Owens River, California

  Rehabilitating river corridors to restore valuable riparian habitat consumes significant resources from both governments and private companies. Given these considerable expenditures, it is important to ...

  Citation × Citation Citation Abstract Copy Title: Using Landsat TM Imagery to Monitor Vegetation Change Following Flow Restoration to the Lower Owens River, California Author: Bross, Lesley Crandell Year: 2015 Rehabilitating river corridors to restore valuable riparian habitat consumes significant resources from both governments and private companies. Given these considerable expenditures, it is important to monitor the progress of such projects. This study evaluated the utility of using Landsat Thematic Mapper remotely-sensed data from 2002 and 2009 to monitor vegetation change induced by instream flow restoration to the Lower Owens River in central California. This study compared the results of an unsupervised classification with an NDVI threshold classification to appraise the resources required and effectiveness of each analysis method. The results were inspected by creating standard remote sensing accuracy error matrices and by correlating landscape pattern metrics with bird indicator species. Both sets of classified maps show a noticeable increase in riparian vegetation in the study area following flow restoration in 2006, indicating an improvement of the quality of bird habitat. The study concluded that analyzing vegetation change using the unsupervised classification technique required more effort, expert knowledge, and supplementary data than using the NDVI threshold method. If these prerequisites are met, the output from the unsupervised classification process produces a more precise map of land cover change than the NDVI threshold method. However, if an analyst is lacking either resources or ground verification data, the NDVI threshold technique is capable of providing a generalized, but still valid evaluation of vegetation change. This conclusion is supported by higher correlations between indicator bird species under the unsupervised classification method than were found with the NDVI threshold method. Title: Using Landsat TM Imagery to Monitor Vegetation Change Following Flow Restoration to the Lower Owens River, California Author: Bross, Lesley Crandell Year: 2015 Rehabilitating river corridors to restore valuable riparian habitat consumes significant resources from both governments and private companies. Given these considerable expenditures, it is important to monitor the progress of such projects. This study evaluated the utility of using Landsat Thematic Mapper remotely-sensed data from 2002 and 2009 to monitor vegetation change induced by instream flow restoration to the Lower Owens River in central California. This study compared the results of an unsupervised classification with an NDVI threshold classification to appraise the resources required and effectiveness of each analysis method. The results were inspected by creating standard remote sensing accuracy error matrices and by correlating landscape pattern metrics with bird indicator species. Both sets of classified maps show a noticeable increase in riparian vegetation in the study area following flow restoration in 2006, indicating an improvement of the quality of bird habitat. The study concluded that analyzing vegetation change using the unsupervised classification technique required more effort, expert knowledge, and supplementary data than using the NDVI threshold method. If these prerequisites are met, the output from the unsupervised classification process produces a more precise map of land cover change than the NDVI threshold method. However, if an analyst is lacking either resources or ground verification data, the NDVI threshold technique is capable of providing a generalized, but still valid evaluation of vegetation change. This conclusion is supported by higher correlations between indicator bird species under the unsupervised classification method than were found with the NDVI threshold method. Close

• 2. [Article] Estimating Watershed Biodiversity: An Empirical Study of the Chesapeake Bay in Maryland, USA

  There has been increasing demand for rigorous methods for evaluating biodiversity, one of the ecosystem services that sustains and fulfills human life. After carefully examining the literature, we found ...

  Citation × Citation Citation Abstract Copy Title: Estimating Watershed Biodiversity: An Empirical Study of the Chesapeake Bay in Maryland, USA Author: Morimoto, Junko, Voinov, Helena, Wilson, Matthew A., Costanza, Robert Year: 2003 There has been increasing demand for rigorous methods for evaluating biodiversity, one of the ecosystem services that sustains and fulfills human life. After carefully examining the literature, we found three key points that should be taken into account when we evaluate biodiversity. The first point is that any "indicator species" tends to be a leaky target of biodiversity. The second point is that "buffering" that is useful for representing the ecological concept of boundaries should have scientific meanings. The third point is that a "watershed" that integrates most natural processes is advantageous as the spatial range for evaluation. Based on these considerations, we developed the Biodiversity Probability Index (BPI) to account for biodiversity. We analyzed the relationship between BPI and total economic value of ecosystem services per unit area in order to test the reliability and utility of BPI. All BPI values were under a positive regression curve. The curve showed the highest economic value that could be achieved at a given biodiversity status. Based on our findings along the analysis, we conclude that the BPI has two advantages: (1) The BPI identifies the extent of the impact on biodiversity within a given landscape, and its composition of each category of species helps to identify what kind of wild life habitat could be seriously threatened by future land use development; (2) The BPI tells not only the biodiversity condition in ecological sense, but also provides the potential total economic value of ecosystem services, which will be achieved under ideal conditions. Title: Estimating Watershed Biodiversity: An Empirical Study of the Chesapeake Bay in Maryland, USA Author: Morimoto, Junko, Voinov, Helena, Wilson, Matthew A., Costanza, Robert Year: 2003 There has been increasing demand for rigorous methods for evaluating biodiversity, one of the ecosystem services that sustains and fulfills human life. After carefully examining the literature, we found three key points that should be taken into account when we evaluate biodiversity. The first point is that any "indicator species" tends to be a leaky target of biodiversity. The second point is that "buffering" that is useful for representing the ecological concept of boundaries should have scientific meanings. The third point is that a "watershed" that integrates most natural processes is advantageous as the spatial range for evaluation. Based on these considerations, we developed the Biodiversity Probability Index (BPI) to account for biodiversity. We analyzed the relationship between BPI and total economic value of ecosystem services per unit area in order to test the reliability and utility of BPI. All BPI values were under a positive regression curve. The curve showed the highest economic value that could be achieved at a given biodiversity status. Based on our findings along the analysis, we conclude that the BPI has two advantages: (1) The BPI identifies the extent of the impact on biodiversity within a given landscape, and its composition of each category of species helps to identify what kind of wild life habitat could be seriously threatened by future land use development; (2) The BPI tells not only the biodiversity condition in ecological sense, but also provides the potential total economic value of ecosystem services, which will be achieved under ideal conditions. Close

• 3. [Article] Mapping Conservation Opportunity Areas for the Intertwine's Regional Conservation Strategy

  As part of efforts to develop the Regional Conservation Strategy (RCS) for the greater Portland-Vancouver region, Oregon State University’s Institute for Natural Resources (INR) was asked to use spatial ...

  Citation × Citation Citation Abstract Copy Title: Mapping Conservation Opportunity Areas for the Intertwine's Regional Conservation Strategy Author: Burcsu, Theresa, Kagan, James S. Year: 2011 As part of efforts to develop the Regional Conservation Strategy (RCS) for the greater Portland-Vancouver region, Oregon State University’s Institute for Natural Resources (INR) was asked to use spatial modeling to identify conservation opportunity areas (COAs). To complete the project, INR analysts proposed a strategy that would map high value areas using a landscape approach that is focused on relatively high spatial resolution data sets available for the whole metropolitan region. The approach creates 2 main metrics: one focused on terrestrial organisms and the other focused on aquatic and riparian organisms. These are combined to create a map of highly ranked land areas that can be used to formulate a map of conservation opportunity areas. The purpose of the COA mapping project was to use geographic information system methods to identify landscape patches with conservation and restoration potential. The criteria used to identify these high value patches was based on a number of base- and derived-data sets that we call “data inputs.” The data ranged from recently mapped land use and land cover types, hydrological data to indicate species habitat requirements, and road influence on habitat patches. The project identified some areas in which data gaps exist (e.g., region-wide biodiversity data collected and mapped in consistent ways) and some opportunities for improving existent data sets (e.g., land use/land cover map). The project provided several layers that can be used to guide the final Regional Conservation Strategy in selecting conservation opportunity areas. The best layer will depend upon the needs of the RCS efforts, however, in our opinion the most appropriate layer to use is COA 3.11.1 which weights wetlands fairly high, but not as highly as the second data draft. COA 3.10.1 offers similar results as well. Overall it appears that the model results corroborate corridors analysis done previously (Hennings and Soll 2010). There are some issues remaining that we feel can most adequately be addressed by updating the base land use/land cover map. Title: Mapping Conservation Opportunity Areas for the Intertwine's Regional Conservation Strategy Author: Burcsu, Theresa, Kagan, James S. Year: 2011 As part of efforts to develop the Regional Conservation Strategy (RCS) for the greater Portland-Vancouver region, Oregon State University’s Institute for Natural Resources (INR) was asked to use spatial modeling to identify conservation opportunity areas (COAs). To complete the project, INR analysts proposed a strategy that would map high value areas using a landscape approach that is focused on relatively high spatial resolution data sets available for the whole metropolitan region. The approach creates 2 main metrics: one focused on terrestrial organisms and the other focused on aquatic and riparian organisms. These are combined to create a map of highly ranked land areas that can be used to formulate a map of conservation opportunity areas. The purpose of the COA mapping project was to use geographic information system methods to identify landscape patches with conservation and restoration potential. The criteria used to identify these high value patches was based on a number of base- and derived-data sets that we call “data inputs.” The data ranged from recently mapped land use and land cover types, hydrological data to indicate species habitat requirements, and road influence on habitat patches. The project identified some areas in which data gaps exist (e.g., region-wide biodiversity data collected and mapped in consistent ways) and some opportunities for improving existent data sets (e.g., land use/land cover map). The project provided several layers that can be used to guide the final Regional Conservation Strategy in selecting conservation opportunity areas. The best layer will depend upon the needs of the RCS efforts, however, in our opinion the most appropriate layer to use is COA 3.11.1 which weights wetlands fairly high, but not as highly as the second data draft. COA 3.10.1 offers similar results as well. Overall it appears that the model results corroborate corridors analysis done previously (Hennings and Soll 2010). There are some issues remaining that we feel can most adequately be addressed by updating the base land use/land cover map. Close

• 4. [Article] Spatial and Temporal Variability of Contaminants Within Estuarine Sediments and Native Olympia Oysters: A Contrast Between a Developed and an Undeveloped Estuary

  Chemical contaminants can be introduced into estuarine and marine ecosystems from a variety of sources including wastewater, agriculture and forestry practices, point and non-point discharges, runoff from ...

  Citation × Citation Citation Abstract Copy Title: Spatial and Temporal Variability of Contaminants Within Estuarine Sediments and Native Olympia Oysters: A Contrast Between a Developed and an Undeveloped Estuary Author: Granek, Elise F., Conn, Katherine E., Nilsen, Elena B., Pillsbury, Lori, Strecker, Angela L., Rumrill, Steven S., Fish, William Year: 2016 Chemical contaminants can be introduced into estuarine and marine ecosystems from a variety of sources including wastewater, agriculture and forestry practices, point and non-point discharges, runoff from industrial, municipal, and urban lands, accidental spills, and atmospheric deposition. The diversity of potential sources contributes to the likelihood of contaminated marine waters and sediments and increases the probability of uptake by marine organisms. Despite widespread recognition of direct and indirect pathways for contaminant deposition and organismal exposure in coastal systems, spatial and temporal variability in contaminant composition, deposition, and uptake patterns are still poorly known. We investigated these patterns for a suite of persistent legacy contaminants including polychlorinated biphenyls (PCBs) and polybrominated diphenyl ethers (PBDEs) and chemicals of emerging concern including pharmaceuticals within two Oregon coastal estuaries (Coos and Netarts Bays). In the more urbanized Coos Bay, native Olympia oyster (Ostrea lurida) tissue had approximately twice the number of PCB congeners at over seven times the total concentration, yet fewer PBDEs at one-tenth the concentration as compared to the more rural Netarts Bay. Different pharmaceutical suites were detected during each sampling season. Variability in contaminant types and concentrations across seasons and between species and media (organisms versus sediment) indicates the limitation of using indicator species and/or sampling annually to determine contaminant loads at a site or for specific species. The results indicate the prevalence of legacy contaminants and CECs in relatively undeveloped coastal environments highlighting the need to improve policy and management actions to reduce contaminant releases into estuarine and marine waters and to deal with legacy compounds that remain long after prohibition of use. Our results point to the need for better understanding of the ecological and human health risks of exposure to the diverse cocktail of pollutants and harmful compounds that will continue to leach from estuarine sediments over time. Title: Spatial and Temporal Variability of Contaminants Within Estuarine Sediments and Native Olympia Oysters: A Contrast Between a Developed and an Undeveloped Estuary Author: Granek, Elise F., Conn, Katherine E., Nilsen, Elena B., Pillsbury, Lori, Strecker, Angela L., Rumrill, Steven S., Fish, William Year: 2016 Chemical contaminants can be introduced into estuarine and marine ecosystems from a variety of sources including wastewater, agriculture and forestry practices, point and non-point discharges, runoff from industrial, municipal, and urban lands, accidental spills, and atmospheric deposition. The diversity of potential sources contributes to the likelihood of contaminated marine waters and sediments and increases the probability of uptake by marine organisms. Despite widespread recognition of direct and indirect pathways for contaminant deposition and organismal exposure in coastal systems, spatial and temporal variability in contaminant composition, deposition, and uptake patterns are still poorly known. We investigated these patterns for a suite of persistent legacy contaminants including polychlorinated biphenyls (PCBs) and polybrominated diphenyl ethers (PBDEs) and chemicals of emerging concern including pharmaceuticals within two Oregon coastal estuaries (Coos and Netarts Bays). In the more urbanized Coos Bay, native Olympia oyster (Ostrea lurida) tissue had approximately twice the number of PCB congeners at over seven times the total concentration, yet fewer PBDEs at one-tenth the concentration as compared to the more rural Netarts Bay. Different pharmaceutical suites were detected during each sampling season. Variability in contaminant types and concentrations across seasons and between species and media (organisms versus sediment) indicates the limitation of using indicator species and/or sampling annually to determine contaminant loads at a site or for specific species. The results indicate the prevalence of legacy contaminants and CECs in relatively undeveloped coastal environments highlighting the need to improve policy and management actions to reduce contaminant releases into estuarine and marine waters and to deal with legacy compounds that remain long after prohibition of use. Our results point to the need for better understanding of the ecological and human health risks of exposure to the diverse cocktail of pollutants and harmful compounds that will continue to leach from estuarine sediments over time. Close

• 5. [Article] Life history of Philophthalmus megalurus (Cort, 1914) in western Oregon

  The specific identification of a megalurous cercaria found in the snail Oxytrema plicifera was accomplished by completing the life cycle in the laboratory. This species is compared with the eastern Philophthalmus ...

  Citation × Citation Citation Abstract Copy Title: Life history of Philophthalmus megalurus (Cort, 1914) in western Oregon Author: McMillan, Toni Anne Year: 1971 The specific identification of a megalurous cercaria found in the snail Oxytrema plicifera was accomplished by completing the life cycle in the laboratory. This species is compared with the eastern Philophthalmus megalurus and P. gralli with which it was once confused. The eggs, miracidia, and rediae of the Oregon species were found to be similar to those of the above species. The body and organ sizes and sucker ratios for the cercariae and adult stages obviously indicate that the Oregon species is Philophthalmus megalurus. Title: Life history of Philophthalmus megalurus (Cort, 1914) in western Oregon Author: McMillan, Toni Anne Year: 1971 The specific identification of a megalurous cercaria found in the snail Oxytrema plicifera was accomplished by completing the life cycle in the laboratory. This species is compared with the eastern Philophthalmus megalurus and P. gralli with which it was once confused. The eggs, miracidia, and rediae of the Oregon species were found to be similar to those of the above species. The body and organ sizes and sucker ratios for the cercariae and adult stages obviously indicate that the Oregon species is Philophthalmus megalurus. Close

• 6. [Article] Assessing a Fluorescence Spectroscopy Method for In-Situ Microbial Drinking Water Quality

  Waterborne disease is a significant contributor to the global burden of disease, in particular among high-risk populations in developing nations. State-of-the-art methods for the enumeration of microbial ...

  Citation × Citation Citation Abstract Copy Title: Assessing a Fluorescence Spectroscopy Method for In-Situ Microbial Drinking Water Quality Author: Sharpe, Taylor Jeffery Year: 2017 Waterborne disease is a significant contributor to the global burden of disease, in particular among high-risk populations in developing nations. State-of-the-art methods for the enumeration of microbial pathogens in drinking water sources have important limitations, including high initial cost, 24-48 hour delays in results, high staffing and facility requirements, and training requirements which all become especially problematic in the developing nation context. A number of alternative approaches to microbial water quality testing have been proposed, with the goal of decreasing the required testing time, decreasing overall costs, leveraging appropriate technology approaches, or improving sensitivity or specificity of the water quality testing method. One approach that may offer solutions to some of these limitations involves the deployment of sensor networks using fluorescent spectroscopy to detect intrinsic protein fluorescence in water samples as a proxy for microbial activity. In recent years, a number of researchers have found significant and meaningful correlations between indicator bacteria species and the protein fluorescence of drinking water samples. Additionally, advances in the semiconductor industry could be used to drive down the cost of such sensors. This technology may also be extensible to other water quality parameters, including dissolved organic matter or the presence of fluorescent pollutants. In this thesis, a literature review describes the fundamentals of fluorescence spectroscopy, historical and recent work regarding the fluorescence of the amino acid tryptophan and associated bacterial fluorescence, possible mechanisms for this association, and potential applications of this technology for drinking water quality monitoring and waste water process control. Extensibility of the technology is also discussed. Next, experimental methodology in reproduction of similar results is described. Samples were taken from seven (7) surface water sources and tested using membrane filtration and an off-the-shelf fluorescence spectrometer to help examine the association between the presence of indicator bacteria and the tryptophan fluorescence of the water sample. The results, showing an association of R2 = 0.560, are compared to the results of recent similar experiments. Finally, two prototypes are described, including their design requirements and data from prototype testing. The results of the testing are briefly discussed, and next steps are outlined with the goal of developing a low-cost, in-situ microbial water quality sensor using fluorescence spectroscopy principles. Title: Assessing a Fluorescence Spectroscopy Method for In-Situ Microbial Drinking Water Quality Author: Sharpe, Taylor Jeffery Year: 2017 Waterborne disease is a significant contributor to the global burden of disease, in particular among high-risk populations in developing nations. State-of-the-art methods for the enumeration of microbial pathogens in drinking water sources have important limitations, including high initial cost, 24-48 hour delays in results, high staffing and facility requirements, and training requirements which all become especially problematic in the developing nation context. A number of alternative approaches to microbial water quality testing have been proposed, with the goal of decreasing the required testing time, decreasing overall costs, leveraging appropriate technology approaches, or improving sensitivity or specificity of the water quality testing method. One approach that may offer solutions to some of these limitations involves the deployment of sensor networks using fluorescent spectroscopy to detect intrinsic protein fluorescence in water samples as a proxy for microbial activity. In recent years, a number of researchers have found significant and meaningful correlations between indicator bacteria species and the protein fluorescence of drinking water samples. Additionally, advances in the semiconductor industry could be used to drive down the cost of such sensors. This technology may also be extensible to other water quality parameters, including dissolved organic matter or the presence of fluorescent pollutants. In this thesis, a literature review describes the fundamentals of fluorescence spectroscopy, historical and recent work regarding the fluorescence of the amino acid tryptophan and associated bacterial fluorescence, possible mechanisms for this association, and potential applications of this technology for drinking water quality monitoring and waste water process control. Extensibility of the technology is also discussed. Next, experimental methodology in reproduction of similar results is described. Samples were taken from seven (7) surface water sources and tested using membrane filtration and an off-the-shelf fluorescence spectrometer to help examine the association between the presence of indicator bacteria and the tryptophan fluorescence of the water sample. The results, showing an association of R2 = 0.560, are compared to the results of recent similar experiments. Finally, two prototypes are described, including their design requirements and data from prototype testing. The results of the testing are briefly discussed, and next steps are outlined with the goal of developing a low-cost, in-situ microbial water quality sensor using fluorescence spectroscopy principles. Close

• 7. [Article] Predicted Effects of Gypsy Moth Defoliation and Climate Change on Forest Carbon Dynamics in the New Jersey Pine Barrens

  Disturbance regimes within temperate forests can significantly impact carbon cycling. Additionally, projected climate change in combination with multiple, interacting disturbance effects may disrupt the ...

  Citation × Citation Citation Abstract Copy Title: Predicted Effects of Gypsy Moth Defoliation and Climate Change on Forest Carbon Dynamics in the New Jersey Pine Barrens Author: Kretchun, Alec M., Scheller, Robert M., Lucash, Melissa S., Clark, Kenneth L., Hom, John, Van Tuyl, Steve Year: 2014 Disturbance regimes within temperate forests can significantly impact carbon cycling. Additionally, projected climate change in combination with multiple, interacting disturbance effects may disrupt the capacity of forests to act as carbon sinks at large spatial and temporal scales. We used a spatially explicit forest succession and disturbance model, LANDIS-II, to model the effects of climate change, gypsy moth (Lymantria dispar L.) defoliation, and wildfire on the C dynamics of the forests of the New Jersey Pine Barrens over the next century. Climate scenarios were simulated using current climate conditions (baseline), as well as a high emissions scenario (HadCM3 A2 emissions scenario). Our results suggest that long-term changes in C cycling will be driven more by climate change than by fire or gypsy moths over the next century. We also found that simulated disturbances will affect species composition more than tree growth or C sequestration rates at the landscape level. Projected changes in tree species biomass indicate a potential increase in oaks with climate change and gypsy moth defoliation over the course of the 100-year simulation, exacerbating current successional trends towards increased oak abundance. Our research suggests that defoliation under climate change may play a critical role in increasing the variability of tree growth rates and in determining landscape species composition over the next 100 years. Title: Predicted Effects of Gypsy Moth Defoliation and Climate Change on Forest Carbon Dynamics in the New Jersey Pine Barrens Author: Kretchun, Alec M., Scheller, Robert M., Lucash, Melissa S., Clark, Kenneth L., Hom, John, Van Tuyl, Steve Year: 2014 Disturbance regimes within temperate forests can significantly impact carbon cycling. Additionally, projected climate change in combination with multiple, interacting disturbance effects may disrupt the capacity of forests to act as carbon sinks at large spatial and temporal scales. We used a spatially explicit forest succession and disturbance model, LANDIS-II, to model the effects of climate change, gypsy moth (Lymantria dispar L.) defoliation, and wildfire on the C dynamics of the forests of the New Jersey Pine Barrens over the next century. Climate scenarios were simulated using current climate conditions (baseline), as well as a high emissions scenario (HadCM3 A2 emissions scenario). Our results suggest that long-term changes in C cycling will be driven more by climate change than by fire or gypsy moths over the next century. We also found that simulated disturbances will affect species composition more than tree growth or C sequestration rates at the landscape level. Projected changes in tree species biomass indicate a potential increase in oaks with climate change and gypsy moth defoliation over the course of the 100-year simulation, exacerbating current successional trends towards increased oak abundance. Our research suggests that defoliation under climate change may play a critical role in increasing the variability of tree growth rates and in determining landscape species composition over the next 100 years. Close

• 8. [Article] Wet Meadow Plant Associations, Double O Unit, Malheur National Wildlife Refuge, Harney County, Oregon

  This report summarizes vegetation data collected in July 2015 in wet meadow and marshy habitats on the Double O Unit of Malheur National Wildlife Refuge (MNWR). Because vegetation sampled at the Double ...

  Citation × Citation Citation Abstract Copy Title: Wet Meadow Plant Associations, Double O Unit, Malheur National Wildlife Refuge, Harney County, Oregon Author: Christy, John A. Year: 2016 This report summarizes vegetation data collected in July 2015 in wet meadow and marshy habitats on the Double O Unit of Malheur National Wildlife Refuge (MNWR). Because vegetation sampled at the Double O was wetter and more alkaline than wet meadows sampled at the south end of the refuge in 2012 and 2013 (Christy 2014), data from the Double O Unit were analyzed and summarized separately. A total of 83 plots were sampled in 2015, and analysis of the data identified 14 plant associations: Alopecurus aequalis - Juncus balticus, Alopecurus pratensis - Potentilla anserina, Carex praegracilis - Juncus balticus, Cicuta douglasii - Carex nebrascensis, Distichlis spicata - Amphiscirpus nevadensis, Distichlis spicata - Nitrophila occidentalis, Eleocharis palustris - Juncus balticus, Eleocharis rostellata, Juncus balticus - Glaux maritima, Hippuris vulgaris - Triglochin maritima, Leymus triticoides - Juncus balticus, Schoenoplectus americanus, Spartina gracilis, and Triglochin maritima. Plant associations spanned a wetland gradient from seasonally moist to seasonally or perennially flooded, but surface water had left most stands at time of sampling. Mean Wetland Indicator Status scores and species composition help to place the plant associations within gradients in soil moisture and alkalinity. Seven of the 14 plant associations are listed in the International Vegetation Classification, and the remaining types are provisional Title: Wet Meadow Plant Associations, Double O Unit, Malheur National Wildlife Refuge, Harney County, Oregon Author: Christy, John A. Year: 2016 This report summarizes vegetation data collected in July 2015 in wet meadow and marshy habitats on the Double O Unit of Malheur National Wildlife Refuge (MNWR). Because vegetation sampled at the Double O was wetter and more alkaline than wet meadows sampled at the south end of the refuge in 2012 and 2013 (Christy 2014), data from the Double O Unit were analyzed and summarized separately. A total of 83 plots were sampled in 2015, and analysis of the data identified 14 plant associations: Alopecurus aequalis - Juncus balticus, Alopecurus pratensis - Potentilla anserina, Carex praegracilis - Juncus balticus, Cicuta douglasii - Carex nebrascensis, Distichlis spicata - Amphiscirpus nevadensis, Distichlis spicata - Nitrophila occidentalis, Eleocharis palustris - Juncus balticus, Eleocharis rostellata, Juncus balticus - Glaux maritima, Hippuris vulgaris - Triglochin maritima, Leymus triticoides - Juncus balticus, Schoenoplectus americanus, Spartina gracilis, and Triglochin maritima. Plant associations spanned a wetland gradient from seasonally moist to seasonally or perennially flooded, but surface water had left most stands at time of sampling. Mean Wetland Indicator Status scores and species composition help to place the plant associations within gradients in soil moisture and alkalinity. Seven of the 14 plant associations are listed in the International Vegetation Classification, and the remaining types are provisional Close

• 9. [Article] Ecosystem Recovery in Estuarine Wetlands of the Columbia River Estuary

  In the restoration of tidal wetland ecosystems, potential drivers of plant community development range from biotic controls (e.g. plant competition, seed dispersal) to abiotic controls (e.g. tidal flooding, ...

  Citation × Citation Citation Abstract Copy Title: Ecosystem Recovery in Estuarine Wetlands of the Columbia River Estuary Author: Kidd, Sarah Ann Year: 2017 In the restoration of tidal wetland ecosystems, potential drivers of plant community development range from biotic controls (e.g. plant competition, seed dispersal) to abiotic controls (e.g. tidal flooding, salinity levels). How these controls influence the success of tidal wetland restoration are only partly understood, but have important implications for wetland habitat recovery. Specifically, the extent to which the existing native and non-native seed banks in tidally reconnected wetlands interact with these controls is not clear, yet the potential success of passive restoration methods depends upon this understanding. For a 54-year chronosequence of eleven tidal wetland restoration sites in the Lower Columbia River of western Oregon, USA, it was hypothesized that native plant species and soil properties would show trends approaching reference levels within 3 to 20 years post-restoration and that lower elevation wetland areas within restored sites would exhibit a greater native species abundance and similarity to reference sites, compared with restored high elevation wetland areas. Results indicated that plant species richness, soil organic matter, bulk density, pH, and salinity conditions among the restoration sites reached reference wetland ranges within 3-6 years post-tidal reconnection. The mid-low marsh elevation zones (2.5 m) remained dominated by non-native species Phalaris arundinacea and Juncus effusus subsp. effusus. To investigate the mechanisms driving these non-native plant invasions, it was hypothesized that native and non-native wetland plant community distributions would be reflective both of their abundance in the seed bank and of their germination tolerance to wetland tidal flooding and salinity conditions. Using a factorial study design of three tidal conditions by three salinity levels, these hypotheses were tested in the greenhouse. Overall, non-native seeds were found to significantly outnumber native seeds in both seed banks. In the greenhouse, P. arundinacea and J. effusus were found to germinate more readily out of the seed bank under freshwater high-marsh flooding (1 hour a day) treatments as compared to oligohaline (3 ppt) mid-low marsh flooding (3-6 hours twice a day) treatments and to brackish salinity (10 ppt) treatments. Dominant native wetland species, Carex lyngbyei and Schoenoplectus lacustris, germination were not found to vary significantly among the treatments (p > 0.10). These results indicate that the salinity and flooding gradients within these restored marshes suppress germination of the non-native species in the low-mid marsh but not in the high marsh, where they are likely able to outcompete the native species due to their dominance in the seed bank. The implications of these results for passive tidal wetland restoration efforts are that both seed bank composition and species-specific tolerances to restored tidal flooding and salinity gradients are key mechanisms driving native and non-native plant community development and resilience. Title: Ecosystem Recovery in Estuarine Wetlands of the Columbia River Estuary Author: Kidd, Sarah Ann Year: 2017 In the restoration of tidal wetland ecosystems, potential drivers of plant community development range from biotic controls (e.g. plant competition, seed dispersal) to abiotic controls (e.g. tidal flooding, salinity levels). How these controls influence the success of tidal wetland restoration are only partly understood, but have important implications for wetland habitat recovery. Specifically, the extent to which the existing native and non-native seed banks in tidally reconnected wetlands interact with these controls is not clear, yet the potential success of passive restoration methods depends upon this understanding. For a 54-year chronosequence of eleven tidal wetland restoration sites in the Lower Columbia River of western Oregon, USA, it was hypothesized that native plant species and soil properties would show trends approaching reference levels within 3 to 20 years post-restoration and that lower elevation wetland areas within restored sites would exhibit a greater native species abundance and similarity to reference sites, compared with restored high elevation wetland areas. Results indicated that plant species richness, soil organic matter, bulk density, pH, and salinity conditions among the restoration sites reached reference wetland ranges within 3-6 years post-tidal reconnection. The mid-low marsh elevation zones (2.5 m) remained dominated by non-native species Phalaris arundinacea and Juncus effusus subsp. effusus. To investigate the mechanisms driving these non-native plant invasions, it was hypothesized that native and non-native wetland plant community distributions would be reflective both of their abundance in the seed bank and of their germination tolerance to wetland tidal flooding and salinity conditions. Using a factorial study design of three tidal conditions by three salinity levels, these hypotheses were tested in the greenhouse. Overall, non-native seeds were found to significantly outnumber native seeds in both seed banks. In the greenhouse, P. arundinacea and J. effusus were found to germinate more readily out of the seed bank under freshwater high-marsh flooding (1 hour a day) treatments as compared to oligohaline (3 ppt) mid-low marsh flooding (3-6 hours twice a day) treatments and to brackish salinity (10 ppt) treatments. Dominant native wetland species, Carex lyngbyei and Schoenoplectus lacustris, germination were not found to vary significantly among the treatments (p > 0.10). These results indicate that the salinity and flooding gradients within these restored marshes suppress germination of the non-native species in the low-mid marsh but not in the high marsh, where they are likely able to outcompete the native species due to their dominance in the seed bank. The implications of these results for passive tidal wetland restoration efforts are that both seed bank composition and species-specific tolerances to restored tidal flooding and salinity gradients are key mechanisms driving native and non-native plant community development and resilience. Close

• 10. [Article] Sablefish (Anoplopoma fimbria) Scarcity and Zooarchaeological Data Quality in Northwest Coast Archaeological Sites

  Sablefish (Anoplopoma fimbria) is a scarcely represented species in Northwest Coast archaeology, but its remains are abundant at Tse-whit-zen, a large, Lower Elwha Klallam village in modern Port Angeles, ...

  Citation × Citation Citation Abstract Copy Title: Sablefish (Anoplopoma fimbria) Scarcity and Zooarchaeological Data Quality in Northwest Coast Archaeological Sites Author: Nims, Reno Year: 2016 Sablefish (Anoplopoma fimbria) is a scarcely represented species in Northwest Coast archaeology, but its remains are abundant at Tse-whit-zen, a large, Lower Elwha Klallam village in modern Port Angeles, WA that was occupied over the past 2,800 years. Because sablefish flesh has high nutritional value and it can be easily captured from nearshore waters in its juvenile form, sablefish should have been pursued where it was available. Therefore, the scarcity of sablefish in many Northwest Coast archaeological sites could indicate this species was not abundant in past fisheries. However, current zooarchaeological reports do not contain sufficient information on taphonomic histories, sampling, or zooarchaeological methods to determine whether patterns of sablefish scarcity could actually explained by differential destruction of sablefish remains, sample size effects, screen size effects, or misidentification. In this thesis, I examine how each of these factors may have affected the abundance of sablefish remains in Northwest coast archaeological sites. I evaluate four hypotheses that attribute sablefish representation to zooarchaeological identification methods, screen size, sample size, and post-depositional destruction of fishbone. While I do not explicitly test whether social and ecological factors affect sablefish abundance, sociocultural and environmental variation can be considered likely explanations for the observed patterns of sablefish representation if the other hypotheses are rejected. I test my hypotheses using three scales of archaeological records. First, I reanalyzed six previously analyzed Salish Sea assemblages to assess whether criteria for sablefish identification exist, are valid, and have been applied consistently. Second, I synthesized fishbone data from 35 previously analyzed Northwest Coast assemblages to evaluate the effects of screen size, sample size, and post-depositional destruction on sablefish representation. Finally, I integrate previously unreported fishbone data from the analysis of Tse-whit-zen into the synthesis of previous studies. The Tse-whit-zen materials I report on here represent six discrete time periods in the 1,800-year history of one large area of the site, which encompasses part of a plankhouse, providing a unique opportunity to examine the effects of screening, sample size, and post-depositional destruction at an extremely fine scale. I also use data from the reanalysis of a portion of the Tse-whit-zen fishbone to verify the consistency of sablefish identification for this site. I reject all four hypotheses and conclude that the uneven distribution of sablefish is likely a true reflection of ecological factors, human decision-making, or both factors. Whether sablefish scarcity is related to distributions of sablefish in past environments, or whether humans chose not to pursue sablefish is not known from the current study. Connecting sablefish capture to specific seasons with body-size regression methods may reveal associations between sablefish acquisition and other seasonal fisheries and activities, and help evaluate whether they conflicted with sablefish procurement in some contexts. Although zooarchaeological identification and reporting methods do not appear to account for sablefish scarcity, zooarchaeologists need to include more information about their methods so that the validity of inter-assemblage comparisons can be assessed. Zooarchaeologists maximize the value of their contributions to anthropology, biological sciences, and human ecodynamics when they explicitly report the methods they use to identify animal remains. By reporting the methodological and analytic procedures they used in detail, zooarchaeologists enhance the reader's confidence in their conclusions and provide future researchers with the information that is required to replicate their results. Which elements were recorded, and the criteria that were used to make taxonomic attributions, fundamentally affect the primary faunal data that researchers use. This study is part of a growing interest among zooarchaeologists in data quality assurance and quality control, which constitute a critical part of every large-scale comparative analysis. Title: Sablefish (Anoplopoma fimbria) Scarcity and Zooarchaeological Data Quality in Northwest Coast Archaeological Sites Author: Nims, Reno Year: 2016 Sablefish (Anoplopoma fimbria) is a scarcely represented species in Northwest Coast archaeology, but its remains are abundant at Tse-whit-zen, a large, Lower Elwha Klallam village in modern Port Angeles, WA that was occupied over the past 2,800 years. Because sablefish flesh has high nutritional value and it can be easily captured from nearshore waters in its juvenile form, sablefish should have been pursued where it was available. Therefore, the scarcity of sablefish in many Northwest Coast archaeological sites could indicate this species was not abundant in past fisheries. However, current zooarchaeological reports do not contain sufficient information on taphonomic histories, sampling, or zooarchaeological methods to determine whether patterns of sablefish scarcity could actually explained by differential destruction of sablefish remains, sample size effects, screen size effects, or misidentification. In this thesis, I examine how each of these factors may have affected the abundance of sablefish remains in Northwest coast archaeological sites. I evaluate four hypotheses that attribute sablefish representation to zooarchaeological identification methods, screen size, sample size, and post-depositional destruction of fishbone. While I do not explicitly test whether social and ecological factors affect sablefish abundance, sociocultural and environmental variation can be considered likely explanations for the observed patterns of sablefish representation if the other hypotheses are rejected. I test my hypotheses using three scales of archaeological records. First, I reanalyzed six previously analyzed Salish Sea assemblages to assess whether criteria for sablefish identification exist, are valid, and have been applied consistently. Second, I synthesized fishbone data from 35 previously analyzed Northwest Coast assemblages to evaluate the effects of screen size, sample size, and post-depositional destruction on sablefish representation. Finally, I integrate previously unreported fishbone data from the analysis of Tse-whit-zen into the synthesis of previous studies. The Tse-whit-zen materials I report on here represent six discrete time periods in the 1,800-year history of one large area of the site, which encompasses part of a plankhouse, providing a unique opportunity to examine the effects of screening, sample size, and post-depositional destruction at an extremely fine scale. I also use data from the reanalysis of a portion of the Tse-whit-zen fishbone to verify the consistency of sablefish identification for this site. I reject all four hypotheses and conclude that the uneven distribution of sablefish is likely a true reflection of ecological factors, human decision-making, or both factors. Whether sablefish scarcity is related to distributions of sablefish in past environments, or whether humans chose not to pursue sablefish is not known from the current study. Connecting sablefish capture to specific seasons with body-size regression methods may reveal associations between sablefish acquisition and other seasonal fisheries and activities, and help evaluate whether they conflicted with sablefish procurement in some contexts. Although zooarchaeological identification and reporting methods do not appear to account for sablefish scarcity, zooarchaeologists need to include more information about their methods so that the validity of inter-assemblage comparisons can be assessed. Zooarchaeologists maximize the value of their contributions to anthropology, biological sciences, and human ecodynamics when they explicitly report the methods they use to identify animal remains. By reporting the methodological and analytic procedures they used in detail, zooarchaeologists enhance the reader's confidence in their conclusions and provide future researchers with the information that is required to replicate their results. Which elements were recorded, and the criteria that were used to make taxonomic attributions, fundamentally affect the primary faunal data that researchers use. This study is part of a growing interest among zooarchaeologists in data quality assurance and quality control, which constitute a critical part of every large-scale comparative analysis. Close

• 11. [Article] Population Structure of Island-Associated Pantropical Spotted Dolphins (Stenella attenuata) in Hawaiian Waters

  Understanding gene flow, diversity, and dispersal patterns is important for predicting effects of natural events and anthropogenic activities on dolphin populations. With the very recent exceptions of ...

  Citation × Citation Citation Abstract Copy Title: Population Structure of Island-Associated Pantropical Spotted Dolphins (Stenella attenuata) in Hawaiian Waters Author: Courbis, Sarah Shelby Year: 2011 Understanding gene flow, diversity, and dispersal patterns is important for predicting effects of natural events and anthropogenic activities on dolphin populations. With the very recent exceptions of false killer whales (Pseudorca crassidens), spinner dolphins (Stenella longirostris), and common bottlenose dolphins (Tursiops truncatus), Hawaiian odontocete species are managed as single stocks within the U.S. Hawaiian Exclusive Economic Zone. These exceptions are a result of recent studies that have indicated that some species have populations that show fidelity to individual islands or groups of islands, resulting in genetic differentiation, often with management implications. The first part of my study (following the introductory chapter) focused on population structure of pantropical spotted dolphins (Stenella attenuata) near the Hawaiian Islands. Because of the level of human interaction, pantropical spotted dolphin populations need to be defined accurately to be managed in a way that will avoid local population losses, especially given that the commercial and recreational troll fisheries near the islands "fish on dolphins" to catch tuna. I analyzed genetic samples for mtDNA and microsatellite loci from four island regions: Hawai'i, the 4-islands area, O'ahu, and Kaua'i/Ni'ihau. My results support genetic differentiation among the regions of Hawai'i, the 4-islands area, and O'ahu and suggest that pantropical spotted dolphins near Kaua'i/Ni'ihau are likely transient and in very low numbers. There was no strong evidence to support sex-biased dispersal or group fidelity. Possibly, differentiation is mediated by behavior adapted to differing habitat types. From a management perspective, spinner and bottlenose dolphin populations near the Hawaiian Islands have been split into separate stocks for management based on levels of genetic differentiation similar to those found for pantropical spotted dolphins. These precedents suggest that comparable action should be taken to split pantropical spotted dolphin stocks near the Hawaiian Islands. Most population studies rely heavily upon fixation indicies like FST to determine whether populations are genetically differentiated. When FST values are low but significantly different from zero, it can be difficult to interpret the biological significance of these values. As part of my study, I suggest that one way to evaluate whether small FST values indicate significant differentiation is to compare FST values with other populations considered to be separate based on factors such as extreme distance or morphological differences. I examined pantropical spotted dolphins from the coastal and offshore Eastern Tropical Pacificm (ETP), Hawaiian Islands, and China/Taiwan to examine the utility of comparing FST values across separate populations. Among Hawaiian Island regions, FST values are significantly different from zero but small. The comparison of these FST values with more distant populations in the ETP and China/Taiwan indicated that differences among Hawaiian Island regions were similar in magnitude to those found between the offshore and coastal ETP sub-species, but smaller than between the Hawaiian Island regions and the other regions examined. This suggests a level of reproductive isolation among the Hawaiian Islands regions that is comparable to that of offshore and coastal ETP populations, and supports the value of fixation index comparisons in evaluating differentiation among putative populations. My results suggest that assigning specific numerical baseline FST values may not always be biologically meaningful but that determining whether related populations with geographic or other separation show a preponderance of similar, lower, or higher fixation index values can help evaluate whether genetic differences among sympatric or parapatric groups warrants designating them as separate populations for management. Lastly, I explore whether the fast evolving mtDNA control region may be more suited to phylogenetic comparisons among the Stenella than slower evolving gene regions and whether the small number of haplotypes generally used in phylogenetic analyses is adequate for defining relationships among dolphins. Usually, slow evolving regions, such as gene regions, are used in phylogenetic analyses because species and genera have been isolated long enough for variation to have accumulated in such regions but not so long that many reversals (i.e. a mutational change in sequence that later changes back to the original sequence) have occured. The mtDNA control region is typically used for population genetic comparisons rather than phylogenetic comparisons because it is considered to be a fast evolving region. Historically, dolphin phylogeny has been examined using gene regions, which have resulted in ambiguous and unexpected relationships. However, the lack of variation in the mtDNA control region for pantropical spotted dolphin populations and the fact that recent studies have found that the mtDNA control region in cetaceans evolves at about one quarter the rate of other mammals, raises the question as to whether this region would be better suited to phylogenetic studies for the Stenella (and potentially other dolphin species). In comparing 346 haplotypes from five species of Stenella world-wide, I found that the mtDNA control region is probably not a good region to use for phylogenetic analyses, and that even faster evolving regions might perform better. The differences in the mtDNA control region were not sufficient to distinguish clear relationships among the Stenella. I also found that when subsets of haplotypes chosen at random were compared, the results differed among comparisons, suggesting that there is value in using more than the usual one or two haplotypes when making phylogentic comparisons. Given the recent increases in sequence availability (e.g. GenBank) and computing power, researchers should strongly consider using many haplotypes from a variety of populations in their phylogenetic comparisons. Title: Population Structure of Island-Associated Pantropical Spotted Dolphins (Stenella attenuata) in Hawaiian Waters Author: Courbis, Sarah Shelby Year: 2011 Understanding gene flow, diversity, and dispersal patterns is important for predicting effects of natural events and anthropogenic activities on dolphin populations. With the very recent exceptions of false killer whales (Pseudorca crassidens), spinner dolphins (Stenella longirostris), and common bottlenose dolphins (Tursiops truncatus), Hawaiian odontocete species are managed as single stocks within the U.S. Hawaiian Exclusive Economic Zone. These exceptions are a result of recent studies that have indicated that some species have populations that show fidelity to individual islands or groups of islands, resulting in genetic differentiation, often with management implications. The first part of my study (following the introductory chapter) focused on population structure of pantropical spotted dolphins (Stenella attenuata) near the Hawaiian Islands. Because of the level of human interaction, pantropical spotted dolphin populations need to be defined accurately to be managed in a way that will avoid local population losses, especially given that the commercial and recreational troll fisheries near the islands "fish on dolphins" to catch tuna. I analyzed genetic samples for mtDNA and microsatellite loci from four island regions: Hawai'i, the 4-islands area, O'ahu, and Kaua'i/Ni'ihau. My results support genetic differentiation among the regions of Hawai'i, the 4-islands area, and O'ahu and suggest that pantropical spotted dolphins near Kaua'i/Ni'ihau are likely transient and in very low numbers. There was no strong evidence to support sex-biased dispersal or group fidelity. Possibly, differentiation is mediated by behavior adapted to differing habitat types. From a management perspective, spinner and bottlenose dolphin populations near the Hawaiian Islands have been split into separate stocks for management based on levels of genetic differentiation similar to those found for pantropical spotted dolphins. These precedents suggest that comparable action should be taken to split pantropical spotted dolphin stocks near the Hawaiian Islands. Most population studies rely heavily upon fixation indicies like FST to determine whether populations are genetically differentiated. When FST values are low but significantly different from zero, it can be difficult to interpret the biological significance of these values. As part of my study, I suggest that one way to evaluate whether small FST values indicate significant differentiation is to compare FST values with other populations considered to be separate based on factors such as extreme distance or morphological differences. I examined pantropical spotted dolphins from the coastal and offshore Eastern Tropical Pacificm (ETP), Hawaiian Islands, and China/Taiwan to examine the utility of comparing FST values across separate populations. Among Hawaiian Island regions, FST values are significantly different from zero but small. The comparison of these FST values with more distant populations in the ETP and China/Taiwan indicated that differences among Hawaiian Island regions were similar in magnitude to those found between the offshore and coastal ETP sub-species, but smaller than between the Hawaiian Island regions and the other regions examined. This suggests a level of reproductive isolation among the Hawaiian Islands regions that is comparable to that of offshore and coastal ETP populations, and supports the value of fixation index comparisons in evaluating differentiation among putative populations. My results suggest that assigning specific numerical baseline FST values may not always be biologically meaningful but that determining whether related populations with geographic or other separation show a preponderance of similar, lower, or higher fixation index values can help evaluate whether genetic differences among sympatric or parapatric groups warrants designating them as separate populations for management. Lastly, I explore whether the fast evolving mtDNA control region may be more suited to phylogenetic comparisons among the Stenella than slower evolving gene regions and whether the small number of haplotypes generally used in phylogenetic analyses is adequate for defining relationships among dolphins. Usually, slow evolving regions, such as gene regions, are used in phylogenetic analyses because species and genera have been isolated long enough for variation to have accumulated in such regions but not so long that many reversals (i.e. a mutational change in sequence that later changes back to the original sequence) have occured. The mtDNA control region is typically used for population genetic comparisons rather than phylogenetic comparisons because it is considered to be a fast evolving region. Historically, dolphin phylogeny has been examined using gene regions, which have resulted in ambiguous and unexpected relationships. However, the lack of variation in the mtDNA control region for pantropical spotted dolphin populations and the fact that recent studies have found that the mtDNA control region in cetaceans evolves at about one quarter the rate of other mammals, raises the question as to whether this region would be better suited to phylogenetic studies for the Stenella (and potentially other dolphin species). In comparing 346 haplotypes from five species of Stenella world-wide, I found that the mtDNA control region is probably not a good region to use for phylogenetic analyses, and that even faster evolving regions might perform better. The differences in the mtDNA control region were not sufficient to distinguish clear relationships among the Stenella. I also found that when subsets of haplotypes chosen at random were compared, the results differed among comparisons, suggesting that there is value in using more than the usual one or two haplotypes when making phylogentic comparisons. Given the recent increases in sequence availability (e.g. GenBank) and computing power, researchers should strongly consider using many haplotypes from a variety of populations in their phylogenetic comparisons. Close

• 12. [Article] Fish Species Introductions Provide Novel Insights into the Patterns and Drivers of Phylogenetic Structure in Freshwaters

  Despite long-standing interest of terrestrial ecologists, freshwater ecosystems are a fertile, yet unappreciated, testing ground for applying community phylogenetics to uncover mechanisms of species assembly. ...

  Citation × Citation Citation Abstract Copy Title: Fish Species Introductions Provide Novel Insights into the Patterns and Drivers of Phylogenetic Structure in Freshwaters Author: Strecker, Angela L., Olden, Julian D. Year: 2014 Despite long-standing interest of terrestrial ecologists, freshwater ecosystems are a fertile, yet unappreciated, testing ground for applying community phylogenetics to uncover mechanisms of species assembly. We quantify phylogenetic clustering and overdispersion of native and non-native fishes of a large river basin in the American Southwest to test for the mechanisms (environmental filtering versus competitive exclusion) and spatial scales influencing community structure. Contrary to expectations, non-native species were phylogenetically clustered and related to natural environmental conditions, whereas native species were not phylogenetically structured, likely reflecting human-related changes to the basin. The species that are most invasive (in terms of ecological impacts) tended to be the most phylogenetically divergent from natives across watersheds, but not within watersheds, supporting the hypothesis that Darwin's naturalization conundrum is driven by the spatial scale. Phylogenetic distinctiveness may facilitate non-native establishment at regional scales, but environmental filtering restricts local membership to closely related species with physiological tolerances for current environments. By contrast, native species may have been phylogenetically clustered in historical times, but species loss from contemporary populations by anthropogenic activities has likely shaped the phylogenetic signal. Our study implies that fundamental mechanisms of community assembly have changed, with fundamental consequences for the biogeography of both native and non-native species. Title: Fish Species Introductions Provide Novel Insights into the Patterns and Drivers of Phylogenetic Structure in Freshwaters Author: Strecker, Angela L., Olden, Julian D. Year: 2014 Despite long-standing interest of terrestrial ecologists, freshwater ecosystems are a fertile, yet unappreciated, testing ground for applying community phylogenetics to uncover mechanisms of species assembly. We quantify phylogenetic clustering and overdispersion of native and non-native fishes of a large river basin in the American Southwest to test for the mechanisms (environmental filtering versus competitive exclusion) and spatial scales influencing community structure. Contrary to expectations, non-native species were phylogenetically clustered and related to natural environmental conditions, whereas native species were not phylogenetically structured, likely reflecting human-related changes to the basin. The species that are most invasive (in terms of ecological impacts) tended to be the most phylogenetically divergent from natives across watersheds, but not within watersheds, supporting the hypothesis that Darwin's naturalization conundrum is driven by the spatial scale. Phylogenetic distinctiveness may facilitate non-native establishment at regional scales, but environmental filtering restricts local membership to closely related species with physiological tolerances for current environments. By contrast, native species may have been phylogenetically clustered in historical times, but species loss from contemporary populations by anthropogenic activities has likely shaped the phylogenetic signal. Our study implies that fundamental mechanisms of community assembly have changed, with fundamental consequences for the biogeography of both native and non-native species. Close

• 13. [Article] Substrate Age Influences Species Richness and Community Composition of Calicioid Lichens and Fungi on Wooden Buildings

  Identifying processes that drive epiphytic lichen diversity and succession is important for directing conservation efforts and developing forest management plans for the maintenance of biodiversity and ...

  Citation × Citation Citation Abstract Copy Title: Substrate Age Influences Species Richness and Community Composition of Calicioid Lichens and Fungi on Wooden Buildings Author: Peterson, Kate, Calabria, Lalita M., Miller, Jesse E.D., Brown-Clay, Jesse Year: 2017 Identifying processes that drive epiphytic lichen diversity and succession is important for directing conservation efforts and developing forest management plans for the maintenance of biodiversity and forest health. Stand age has been implicated as a key factor in driving epiphytic species diversity and community composition. However, understanding the influence of substrate age, independent of the many confounding variables that affect live and dead wood substrates in a forest habitat, can be difficult. To test the hypothesis that substrate age has distinct effects on lichen community assembly independent of surface area, we sampled communities of calicioid lichens and fungi growing on wooden buildings that ranged from 2 to 82 years old. We found a total of 17 species, with a strong positive correlation between species richness and substrate age. We also tested the effects of surface area on species richness and found no relationship between the two variables. Our results indicate that substrate age influenced community composition; non-lichenized calicioid species acted as early colonizers and six calicioid species were recorded only on the oldest substrate. Old-growth associate species were found on substrates of varying ages, implying that additional variables may also be responsible for the colonization of old-growth associate species. Copyright © 2017 by The American Bryological and Lichenological Society, Inc. Title: Substrate Age Influences Species Richness and Community Composition of Calicioid Lichens and Fungi on Wooden Buildings Author: Peterson, Kate, Calabria, Lalita M., Miller, Jesse E.D., Brown-Clay, Jesse Year: 2017 Identifying processes that drive epiphytic lichen diversity and succession is important for directing conservation efforts and developing forest management plans for the maintenance of biodiversity and forest health. Stand age has been implicated as a key factor in driving epiphytic species diversity and community composition. However, understanding the influence of substrate age, independent of the many confounding variables that affect live and dead wood substrates in a forest habitat, can be difficult. To test the hypothesis that substrate age has distinct effects on lichen community assembly independent of surface area, we sampled communities of calicioid lichens and fungi growing on wooden buildings that ranged from 2 to 82 years old. We found a total of 17 species, with a strong positive correlation between species richness and substrate age. We also tested the effects of surface area on species richness and found no relationship between the two variables. Our results indicate that substrate age influenced community composition; non-lichenized calicioid species acted as early colonizers and six calicioid species were recorded only on the oldest substrate. Old-growth associate species were found on substrates of varying ages, implying that additional variables may also be responsible for the colonization of old-growth associate species. Copyright © 2017 by The American Bryological and Lichenological Society, Inc. Close

• 14. [Article] An analysis of Pteropus livingstonii roost habitat: Indicators for forest conservation on Anjouan and Moheli

  Livingstone's fruit bat (Pteropus livingstonii) is an endangered and endemic species found only on the islands of Anjouan and Mohéli, Comoros. A study was conducted into the habitats selected by P. livingstonii, ...

  Citation × Citation Citation Abstract Copy Title: An analysis of Pteropus livingstonii roost habitat: Indicators for forest conservation on Anjouan and Moheli Author: Granek, Elise F. Year: 2000 Livingstone's fruit bat (Pteropus livingstonii) is an endangered and endemic species found only on the islands of Anjouan and Mohéli, Comoros. A study was conducted into the habitats selected by P. livingstonii, as part of a project to assess areas for nature reserves which will be able to protect and conserve forest resources in the islands; the bat is postulated to be a useful indicator of undisturbed forest. Known roost sites (n=9) before the survey were between 500 and 1100 m altitude, on steeply sloping land, with some indigenous forest cover present. Thirteen new potential roost sites were identified, of which at least six were confirmed as roost sites for P. livingstonii. Bats showed positive associations with two tree species: Gambeya sp. and Nuxia pseudodentata. The study also investigated the participation by local village communities in monitoring bat populations, and the protection of roost sites. Title: An analysis of Pteropus livingstonii roost habitat: Indicators for forest conservation on Anjouan and Moheli Author: Granek, Elise F. Year: 2000 Livingstone's fruit bat (Pteropus livingstonii) is an endangered and endemic species found only on the islands of Anjouan and Mohéli, Comoros. A study was conducted into the habitats selected by P. livingstonii, as part of a project to assess areas for nature reserves which will be able to protect and conserve forest resources in the islands; the bat is postulated to be a useful indicator of undisturbed forest. Known roost sites (n=9) before the survey were between 500 and 1100 m altitude, on steeply sloping land, with some indigenous forest cover present. Thirteen new potential roost sites were identified, of which at least six were confirmed as roost sites for P. livingstonii. Bats showed positive associations with two tree species: Gambeya sp. and Nuxia pseudodentata. The study also investigated the participation by local village communities in monitoring bat populations, and the protection of roost sites. Close

• 15. [Article] Infection of smallmouth bass and goldfish by two species of Saprolegnia

  This study consisted of several experiments designed to compare the ability of two species of fungi, Saprolegnia ferax and S. parasitica to grow on two species of fish, smallmouth bass (Micropterus dolomieui) ...

  Citation × Citation Citation Abstract Copy Title: Infection of smallmouth bass and goldfish by two species of Saprolegnia Author: McGinley, Cheryl A. Year: 1974 This study consisted of several experiments designed to compare the ability of two species of fungi, Saprolegnia ferax and S. parasitica to grow on two species of fish, smallmouth bass (Micropterus dolomieui) and goldfish (Carassius auratus), and to determine the criteria necessary for the development of these infections. The results indicate that water in the fish tanks must be slightly acid (pH 6), warm (22°C), nonmoving, and that the fish must be wounded in order for fungal infection to occur. Cool water (18°C) and moving water, caused by aeration and filtration, are detrimental to fungal colony formation so that no infection occurs. Both S. ferax and S. parasitica infected both species of fish, on an average of three days after innoculation. The S. ferax infected a higher percentage of both fishes than did the S. parasitica. The difference in susceptibility of the two fish species to the fungi was negligible. Title: Infection of smallmouth bass and goldfish by two species of Saprolegnia Author: McGinley, Cheryl A. Year: 1974 This study consisted of several experiments designed to compare the ability of two species of fungi, Saprolegnia ferax and S. parasitica to grow on two species of fish, smallmouth bass (Micropterus dolomieui) and goldfish (Carassius auratus), and to determine the criteria necessary for the development of these infections. The results indicate that water in the fish tanks must be slightly acid (pH 6), warm (22°C), nonmoving, and that the fish must be wounded in order for fungal infection to occur. Cool water (18°C) and moving water, caused by aeration and filtration, are detrimental to fungal colony formation so that no infection occurs. Both S. ferax and S. parasitica infected both species of fish, on an average of three days after innoculation. The S. ferax infected a higher percentage of both fishes than did the S. parasitica. The difference in susceptibility of the two fish species to the fungi was negligible. Close

• 16. [Article] An Examination of Commercial Medicinal Plant Harvests, Mount Hood National Forest, Oregon

  During the past fifteen years, non-timber or special forest products have become an important economic resource in the Pacific Northwest. These products are primarily derived from understory species and ...

  Citation × Citation Citation Abstract Copy Title: An Examination of Commercial Medicinal Plant Harvests, Mount Hood National Forest, Oregon Author: Campbell, Shannon Michelle Year: 2000 During the past fifteen years, non-timber or special forest products have become an important economic resource in the Pacific Northwest. These products are primarily derived from understory species and contribute approximately $200 million to the regional economy. Medicinal plants are a little researched component of the non-timber forest product industry that relies on cultivated and wildcrafted (or wild-collected) medicinal plant species. This study examines the commercial extraction of wildcrafted medicinal plants from Mount Hood National Forest. Specifically, this study documents the medicinal plant species extracted from Mount Hood National Forest, their annual yield amounts, harvesting methods, and the changes in cover of target species after harvest. This research uses survey data obtained from employees of two herbal companies and representatives of the U.S. Forest Service to describe medicinal plant extraction and administration as it pertains to the commercial extraction of plant species from Mount Hood National Forest. Field data were also used to examine changes in plant cover for four medicinal plant species (kinnikinnick, yarrow, Oregon grape and valerian) following harvest. Field results indicate that medicinal plant cover decreased significantly in all but one harvested sampling unit. Permanent unit markers were established at all the study sites to provide opportunities for long-term monitoring of target species responses to harvest. Eleven medicinal plant species are commonly collected for commercial purposes from Mount Hood National Forest. The general lack of regulation and enforcement of commercial medicinal plant extraction coupled with an increasing demand for wildcrafted medicinal plants warrant a need for increased collaboration between regulatory agencies, herbal companies, and the general public. Additional management and research recommendations regarding the ecological impacts of medicinal plant removal are also presented. Title: An Examination of Commercial Medicinal Plant Harvests, Mount Hood National Forest, Oregon Author: Campbell, Shannon Michelle Year: 2000 During the past fifteen years, non-timber or special forest products have become an important economic resource in the Pacific Northwest. These products are primarily derived from understory species and contribute approximately $200 million to the regional economy. Medicinal plants are a little researched component of the non-timber forest product industry that relies on cultivated and wildcrafted (or wild-collected) medicinal plant species. This study examines the commercial extraction of wildcrafted medicinal plants from Mount Hood National Forest. Specifically, this study documents the medicinal plant species extracted from Mount Hood National Forest, their annual yield amounts, harvesting methods, and the changes in cover of target species after harvest. This research uses survey data obtained from employees of two herbal companies and representatives of the U.S. Forest Service to describe medicinal plant extraction and administration as it pertains to the commercial extraction of plant species from Mount Hood National Forest. Field data were also used to examine changes in plant cover for four medicinal plant species (kinnikinnick, yarrow, Oregon grape and valerian) following harvest. Field results indicate that medicinal plant cover decreased significantly in all but one harvested sampling unit. Permanent unit markers were established at all the study sites to provide opportunities for long-term monitoring of target species responses to harvest. Eleven medicinal plant species are commonly collected for commercial purposes from Mount Hood National Forest. The general lack of regulation and enforcement of commercial medicinal plant extraction coupled with an increasing demand for wildcrafted medicinal plants warrant a need for increased collaboration between regulatory agencies, herbal companies, and the general public. Additional management and research recommendations regarding the ecological impacts of medicinal plant removal are also presented. Close

• 17. [Article] OSMB Final Report, Task 4: Oregon Lake Watch

  The Oregon Lake Watch (OLW) volunteer monitoring program was resurrected after over a decade in hibernation. The new program was designed to educate the public about threats of aquatic invasive species ...

  Citation × Citation Citation Abstract Copy Title: OSMB Final Report, Task 4: Oregon Lake Watch Author: Strecker, Angela L., Miller, Rich, Morgan, Vanessa Year: 2014 The Oregon Lake Watch (OLW) volunteer monitoring program was resurrected after over a decade in hibernation. The new program was designed to educate the public about threats of aquatic invasive species (AIS), provide early detection of AIS invasions, and provide long term water quality data for the better management of Oregon’s lakes and reservoirs. Protocols were created for citizen scientists to survey for AIS, collect temperature and water clarity data, and record the data through an online data entry portal. An OLW website was developed to educate about AIS and provide survey protocols and identification materials to volunteers. AIS surveys were focused on Watch List Species which are selected AIS that have a negative impact on the beneficial uses of our waterbodies. Eighteen volunteers were trained during five sessions conducted in western and central Oregon. Fourteen of the trained volunteers collected data from sixteen waterbodies. Six Watch List species and one other AIS species were observed in four of the waterbodies. The three Watch List Species observed in Salish Pond and one in Olallie Lake were new observations. Temperature measurements indicated a wide range of thermal profiles and Secchi transparency measurement indicated a range of trophic status from oligotrophic to eutrophic. Title: OSMB Final Report, Task 4: Oregon Lake Watch Author: Strecker, Angela L., Miller, Rich, Morgan, Vanessa Year: 2014 The Oregon Lake Watch (OLW) volunteer monitoring program was resurrected after over a decade in hibernation. The new program was designed to educate the public about threats of aquatic invasive species (AIS), provide early detection of AIS invasions, and provide long term water quality data for the better management of Oregon’s lakes and reservoirs. Protocols were created for citizen scientists to survey for AIS, collect temperature and water clarity data, and record the data through an online data entry portal. An OLW website was developed to educate about AIS and provide survey protocols and identification materials to volunteers. AIS surveys were focused on Watch List Species which are selected AIS that have a negative impact on the beneficial uses of our waterbodies. Eighteen volunteers were trained during five sessions conducted in western and central Oregon. Fourteen of the trained volunteers collected data from sixteen waterbodies. Six Watch List species and one other AIS species were observed in four of the waterbodies. The three Watch List Species observed in Salish Pond and one in Olallie Lake were new observations. Temperature measurements indicated a wide range of thermal profiles and Secchi transparency measurement indicated a range of trophic status from oligotrophic to eutrophic. Close

• 18. [Article] Survey of Aquatic Plants in Corps of Engineers Reservoirs

  A survey of aquatic plants in a selected Corps of Engineers reservoirs in Oregon was conducted. Cottage Grove, Dorena, Fern Ridge, Dexter and Willow Creek Reservoirs contained abundant aquatic plants. ...

  Citation × Citation Citation Abstract Copy Title: Survey of Aquatic Plants in Corps of Engineers Reservoirs Author: Walker, Kimberly D., Sytsma, Mark D. Year: 2000 A survey of aquatic plants in a selected Corps of Engineers reservoirs in Oregon was conducted. Cottage Grove, Dorena, Fern Ridge, Dexter and Willow Creek Reservoirs contained abundant aquatic plants. Potamogeton pectinatus and Potamogeton epihydrous were the most common native plant species. Myriophyllum aquaticum and Potamogeton crispus were the most widespread nonnative plants. Species richness in the reservoirs was correlated with trophic status and basin morphology. Shallow reservoirs that included extensive areas of nutrient-rich sediments that were historic flood plain soils supported the greatest biomass and number of species. Mesotrophic reservoirs had lower species diversity. Oligotrophic reservoirs with steep basin morphology, nutrient-poor sediments, and large water level fluctuation did not support aquatic vascular plant populations. An aquatic plant management program should be developed for the reservoirs. The program should focus on preventing introduction and spread of invasive aquatic plants and on rapid response procedures for new infestations. Those reservoirs that currently support aquatic macrophyte communities may be most susceptible to invasion and rapid spread of new introductions, however, even reservoirs that are currently free of aquatic plants may be invaded. Early detection is critical to effective implementation of rapid response procedures for invasive aquatic plant control. Annual survey of the most productive reservoirs is recommended to document introduction of new species. Plant community composition changes during the growing season, and multiple surveys during the growing season are preferred over one-time visits. Management of established populations of invasive species in the reservoirs will be difficult. Where invasive plant abundance is limited in area and number management activities may be implemented to slow dispersal and perhaps eradicate the plants. Integrated pest management procedures should be followed to ensure effective and economical aquatic plant control. Title: Survey of Aquatic Plants in Corps of Engineers Reservoirs Author: Walker, Kimberly D., Sytsma, Mark D. Year: 2000 A survey of aquatic plants in a selected Corps of Engineers reservoirs in Oregon was conducted. Cottage Grove, Dorena, Fern Ridge, Dexter and Willow Creek Reservoirs contained abundant aquatic plants. Potamogeton pectinatus and Potamogeton epihydrous were the most common native plant species. Myriophyllum aquaticum and Potamogeton crispus were the most widespread nonnative plants. Species richness in the reservoirs was correlated with trophic status and basin morphology. Shallow reservoirs that included extensive areas of nutrient-rich sediments that were historic flood plain soils supported the greatest biomass and number of species. Mesotrophic reservoirs had lower species diversity. Oligotrophic reservoirs with steep basin morphology, nutrient-poor sediments, and large water level fluctuation did not support aquatic vascular plant populations. An aquatic plant management program should be developed for the reservoirs. The program should focus on preventing introduction and spread of invasive aquatic plants and on rapid response procedures for new infestations. Those reservoirs that currently support aquatic macrophyte communities may be most susceptible to invasion and rapid spread of new introductions, however, even reservoirs that are currently free of aquatic plants may be invaded. Early detection is critical to effective implementation of rapid response procedures for invasive aquatic plant control. Annual survey of the most productive reservoirs is recommended to document introduction of new species. Plant community composition changes during the growing season, and multiple surveys during the growing season are preferred over one-time visits. Management of established populations of invasive species in the reservoirs will be difficult. Where invasive plant abundance is limited in area and number management activities may be implemented to slow dispersal and perhaps eradicate the plants. Integrated pest management procedures should be followed to ensure effective and economical aquatic plant control. Close

• 19. [Article] The Limitation of Spread of Non-native Marine Invertebrates from Artificial Structures to Natural Habitats

  Artificial structures created for aquatic anthropogenic activities are often colonized and fouled by many non-native species, few of which have invaded natural areas. Some research has indicated predation ...

  Citation × Citation Citation Abstract Copy Title: The Limitation of Spread of Non-native Marine Invertebrates from Artificial Structures to Natural Habitats Author: McClees, Whitney, de Rivera, Catherine E. Year: 2017 Artificial structures created for aquatic anthropogenic activities are often colonized and fouled by many non-native species, few of which have invaded natural areas. Some research has indicated predation is limiting the spread of non-native species, while other research has indicated that it is dispersal-driven. To determine the effects of dispersal limitation and predation on the risk to surrounding habitats of being invaded by non-native species established on marina docks, we used a three-factor design, deploying seven unglazed ceramic panels per each treatment combination of 1) inside versus outside a marina in Yaquina Bay, Oregon; 2) cage keeping out predators >mesh size, no cage, or partial cage; 3) fixed near the substrata (benthic) versus floating 1m below the surface. We also moved panels of either adults or recruits from floating in the marina to any of the treatment combinations to test if they would have lower survival outside by the substrate. The community on panels suspended in the marina only minimally overlapped with panels outside of the marina near the bottom. However, there was no difference between the cage treatments, which suggests that predators excluded by the cages are not responsible for the observed differences in species richness or composition. Title: The Limitation of Spread of Non-native Marine Invertebrates from Artificial Structures to Natural Habitats Author: McClees, Whitney, de Rivera, Catherine E. Year: 2017 Artificial structures created for aquatic anthropogenic activities are often colonized and fouled by many non-native species, few of which have invaded natural areas. Some research has indicated predation is limiting the spread of non-native species, while other research has indicated that it is dispersal-driven. To determine the effects of dispersal limitation and predation on the risk to surrounding habitats of being invaded by non-native species established on marina docks, we used a three-factor design, deploying seven unglazed ceramic panels per each treatment combination of 1) inside versus outside a marina in Yaquina Bay, Oregon; 2) cage keeping out predators >mesh size, no cage, or partial cage; 3) fixed near the substrata (benthic) versus floating 1m below the surface. We also moved panels of either adults or recruits from floating in the marina to any of the treatment combinations to test if they would have lower survival outside by the substrate. The community on panels suspended in the marina only minimally overlapped with panels outside of the marina near the bottom. However, there was no difference between the cage treatments, which suggests that predators excluded by the cages are not responsible for the observed differences in species richness or composition. Close

• 20. [Article] Effects of Increased Nitrogen Deposition on the Dominance of Hedera helix in the Pacific Northwest

  Increased nitrogen deposition has been shown to promote the dominance of invasive species, and nitrogen deposition rates have steadily increased in most of the Western United States in recent years due ...

  Citation × Citation Citation Abstract Copy Title: Effects of Increased Nitrogen Deposition on the Dominance of Hedera helix in the Pacific Northwest Author: Dolan, Bianca Christine Year: 2013 Increased nitrogen deposition has been shown to promote the dominance of invasive species, and nitrogen deposition rates have steadily increased in most of the Western United States in recent years due to population increases. The purpose of this study was to determine if increased rates of nitrogen deposition are contributing to the success of Hedera helix in the Pacific Northwest. Plots were established in Lesser Park in Portland, Oregon and received monthly treatments of ammonium nitrate for one year. Growth, measured as change in percent cover, was compared between treated and untreated plots for both H. helix and native species. Additionally, a greenhouse experiment was employed wherein H. helix was grown in shared pots with two native species, Fragaria vesca and Polystichum munitum, and three treatment levels were compared; none, low, and high nitrogen. Relative growth rate was compared between treatments for each species after twelve weeks of treatment. Results from the greenhouse experiment were highly variable and no general conclusions could be drawn about the effects of increased nitrogen deposition on competition between H. helix and native species. In the field, treatment did not have a significant effect on growth but species did have a significant effect, as H. helix had a greater increase in percent cover than native species regardless of treatment. However, a marginally significant interaction was found between species and treatment. Native species cover actually increased in plots that received nitrogen addition and decreased in control plots, while H. helix had a slightly higher increase in cover in control plots. Though the growth of H. helix was significantly higher than the growth of native species in control plots, nitrogen addition caused the growth rates to converge towards more similar means in treated plots. Results indicate that increased nitrogen deposition may actually have a positive effect on the growth of native species by reducing the invasive potential of H. helix. Title: Effects of Increased Nitrogen Deposition on the Dominance of Hedera helix in the Pacific Northwest Author: Dolan, Bianca Christine Year: 2013 Increased nitrogen deposition has been shown to promote the dominance of invasive species, and nitrogen deposition rates have steadily increased in most of the Western United States in recent years due to population increases. The purpose of this study was to determine if increased rates of nitrogen deposition are contributing to the success of Hedera helix in the Pacific Northwest. Plots were established in Lesser Park in Portland, Oregon and received monthly treatments of ammonium nitrate for one year. Growth, measured as change in percent cover, was compared between treated and untreated plots for both H. helix and native species. Additionally, a greenhouse experiment was employed wherein H. helix was grown in shared pots with two native species, Fragaria vesca and Polystichum munitum, and three treatment levels were compared; none, low, and high nitrogen. Relative growth rate was compared between treatments for each species after twelve weeks of treatment. Results from the greenhouse experiment were highly variable and no general conclusions could be drawn about the effects of increased nitrogen deposition on competition between H. helix and native species. In the field, treatment did not have a significant effect on growth but species did have a significant effect, as H. helix had a greater increase in percent cover than native species regardless of treatment. However, a marginally significant interaction was found between species and treatment. Native species cover actually increased in plots that received nitrogen addition and decreased in control plots, while H. helix had a slightly higher increase in cover in control plots. Though the growth of H. helix was significantly higher than the growth of native species in control plots, nitrogen addition caused the growth rates to converge towards more similar means in treated plots. Results indicate that increased nitrogen deposition may actually have a positive effect on the growth of native species by reducing the invasive potential of H. helix. Close

• 21. [Article] The Effectiveness of Vertebrate Passage and Prevention Structures: A Study of Boeckman Road in Wilsonville

  One of the most obvious impacts roads have on the natural world is direct mortality to individual animals that attempt to cross roads. A less obvious but likely more important impact of roads on many species ...

  Citation × Citation Citation Abstract Copy Title: The Effectiveness of Vertebrate Passage and Prevention Structures: A Study of Boeckman Road in Wilsonville Author: de Rivera, Catherine E., Bliss-Ketchum, Leslie L. Year: 2010 One of the most obvious impacts roads have on the natural world is direct mortality to individual animals that attempt to cross roads. A less obvious but likely more important impact of roads on many species is habitat fragmentation. The ability for individuals to travel between subpopulations is the key to genetic diversity as well as ultimately the survival of the species. Considering these impacts and management goals to increase habitat connectivity, increased attention has been given to creating road design that reduces wildlife collisions. Most studies, however, have been in other countries or regions and most focus on connectivity for just one or a few species and rarely in urban settings. This study examines the effectiveness of a variety of under-road passage structures for a community of animals in an urban wetland. Wildlife passage was taken into great consideration in the construction of the Boeckman Road Extension, the new road (2006) in Wilsonville, Oregon, examined in this study. As a result it includes a bridge, two box culverts and eleven round concrete culverts to facilitate wildlife passage as well as a mammal fence atop an amphibian/reptile wall. In order to monitor passage use we used a combination of sand-track monitoring and motion-detect cameras. We compared passage structure use to movement in the habitats surrounding the road by monitoring four habitat transects in addition to the passage structures (Road transect). We also conducted tag and release studies targeted to small mammals. Finally, camera data collected in passage structures were compared to camera monitoring at the end of the exclusionary fencing. A total of 26 species were detected in this study, 73% (19) of which were found to be using passage structures. 15% (4) of the identified species were detected on transects but not in passages and 11.5% (3) were detected in locations other than transects or passage structures. The bridge structure provided passage to the highest number of species (16), followed by the 24” and 18” culverts, which had a combined total of 11 species, and lastly the 9x4 culverts, which were flooded, with 2 species detected. Our results indicate that large and medium mammals overall did not use passages less than would be expected based on their local movement in habitats. In pit and Sherman traps sixteen of the 48 small mammals that were captured and tagged were re-caught, but only four of these moved from one transect to another, with two moving away from the road and the other two moving toward and under the road. Of the species detected with cameras at the passage structures and circumventing fencing, excluding small mammals, reptiles and amphibians (139), 19% (33) were found potentially crossing on the road surface. The proportion of deer detected using over-road crossings (23%) is of particular concern for driver safety. The bridge structure provided the greatest passage, in not only frequency of crossings but also species present. When maintenance factors, driver safety and species of greatest concern are included, the higher cost of the bridge structure would likely be even further balanced by the benefits. This study highlights the effectiveness and potential problems (and possible fixes) of some of the passage and prevention structures. Including passage and prevention structures such as these in road design is imperative for habitat connectivity and the need for this becomes even more apparent as Oregon’s native wildlife face an ever increasing urban landscape as well as the potential impacts of climate change. Title: The Effectiveness of Vertebrate Passage and Prevention Structures: A Study of Boeckman Road in Wilsonville Author: de Rivera, Catherine E., Bliss-Ketchum, Leslie L. Year: 2010 One of the most obvious impacts roads have on the natural world is direct mortality to individual animals that attempt to cross roads. A less obvious but likely more important impact of roads on many species is habitat fragmentation. The ability for individuals to travel between subpopulations is the key to genetic diversity as well as ultimately the survival of the species. Considering these impacts and management goals to increase habitat connectivity, increased attention has been given to creating road design that reduces wildlife collisions. Most studies, however, have been in other countries or regions and most focus on connectivity for just one or a few species and rarely in urban settings. This study examines the effectiveness of a variety of under-road passage structures for a community of animals in an urban wetland. Wildlife passage was taken into great consideration in the construction of the Boeckman Road Extension, the new road (2006) in Wilsonville, Oregon, examined in this study. As a result it includes a bridge, two box culverts and eleven round concrete culverts to facilitate wildlife passage as well as a mammal fence atop an amphibian/reptile wall. In order to monitor passage use we used a combination of sand-track monitoring and motion-detect cameras. We compared passage structure use to movement in the habitats surrounding the road by monitoring four habitat transects in addition to the passage structures (Road transect). We also conducted tag and release studies targeted to small mammals. Finally, camera data collected in passage structures were compared to camera monitoring at the end of the exclusionary fencing. A total of 26 species were detected in this study, 73% (19) of which were found to be using passage structures. 15% (4) of the identified species were detected on transects but not in passages and 11.5% (3) were detected in locations other than transects or passage structures. The bridge structure provided passage to the highest number of species (16), followed by the 24” and 18” culverts, which had a combined total of 11 species, and lastly the 9x4 culverts, which were flooded, with 2 species detected. Our results indicate that large and medium mammals overall did not use passages less than would be expected based on their local movement in habitats. In pit and Sherman traps sixteen of the 48 small mammals that were captured and tagged were re-caught, but only four of these moved from one transect to another, with two moving away from the road and the other two moving toward and under the road. Of the species detected with cameras at the passage structures and circumventing fencing, excluding small mammals, reptiles and amphibians (139), 19% (33) were found potentially crossing on the road surface. The proportion of deer detected using over-road crossings (23%) is of particular concern for driver safety. The bridge structure provided the greatest passage, in not only frequency of crossings but also species present. When maintenance factors, driver safety and species of greatest concern are included, the higher cost of the bridge structure would likely be even further balanced by the benefits. This study highlights the effectiveness and potential problems (and possible fixes) of some of the passage and prevention structures. Including passage and prevention structures such as these in road design is imperative for habitat connectivity and the need for this becomes even more apparent as Oregon’s native wildlife face an ever increasing urban landscape as well as the potential impacts of climate change. Close

• 22. [Article] Mechanisms of Adaptation in the Newly Invasive Species <i>Brachypodium sylvaticum</i> (Hudson) Beauv.

  It is common knowledge that invasive species cause worldwide ecological and economic damage, and are nearly impossible to eradicate. However, upon introduction to a novel environment, alien species should ...

  Citation × Citation Citation Abstract Copy Title: Mechanisms of Adaptation in the Newly Invasive Species <i>Brachypodium sylvaticum</i> (Hudson) Beauv. Author: Marchini, Gina Lola Year: 2015 It is common knowledge that invasive species cause worldwide ecological and economic damage, and are nearly impossible to eradicate. However, upon introduction to a novel environment, alien species should be the underdogs: They are present in small numbers, possess low genetic diversity, and have not adapted to the climate and competitors present in the new habitat. So, how are alien species able to invade an environment occupied by native species that have already adapted to the local environment? To discover some answers to this apparent paradox I conducted four ecological genetic studies that utilized the invasive species Brachypodium sylvaticum (Hudson) Beauv. to determine mechanisms contributing to adaptation and success in the novel habitat. The first study used simulations and experiments to test the hypothesis that genetic purging, the process where genetic load is reduced by selection against the recessive deleterious alleles expressed in the homozygous state, promotes invasive range expansion. I found that homozygous populations on B. sylvaticum's range periphery displayed lower inbreeding depression compared to heterozygous populations near introduction sites. Empirical tests with B. sylvaticum further demonstrate that purging of genetic load is a plausible scenario promoting range expansion during invasion. Next, I explored how the interaction between population genetic diversity and the environment contributed to the establishment and spread of Brachypodium sylvaticum. I found that nitrogen application increases both final size and shoot biomass for B. sylvaticum individuals from source populations with low HS levels to levels found in individuals from populations with high HS. A coefficient of relative competition intensity index (RCI) displayed reduced effects of interspecific competition on B. sylvaticum biomass in high nitrogen plots. Results show that elevated nitrogen deposition is a factor that increases establishment of introduced species with historically small effective population sizes. Thirdly, I investigated phenotypic differentiation during the establishment and range expansion of Brachypodium sylvaticum. Utilizing a novel approach, unique alleles were used to determine the genetic probability of contribution from native source regions to invasive regions. These probabilities were integrated into QST-FST comparisons to determine the influence of selection and genetic drift on twelve physiological and anatomical traits associated with drought stress. Phenotypic divergence greater than neutral expectations was found for five traits between native and invasive populations, indicating selective divergence. Results from this study show that the majority of divergence in B. sylvaticum occurred after introduction to the novel environment, but prior to invasive range expansion. The final chapter of my dissertation investigates the adaptive role of genetic differentiation and plasticity for Brachypodium sylvaticum invasion. Plasticity was measured across treatments of contrasting water availability. Linear and nonlinear selection gradients determined the effect of directional and quadratic selection on plasticity and genetic differentiation. Invasive trait divergence was a consequence of post-introduction selection leading to genetic differentiation, as there were no plastic responses to contrasting water availability for any measured traits. Genetic divergence of invasive plants was not consistently in the direction indicated by selection, suggesting limitations of selection that may be a consequence of physical constraints and/or tradeoffs between growth and abiotic tolerance. Results suggest that selection, rather than plasticity, is driving phenotypic change in the invaded environment. The combined volume of these studies contributes significantly to the field of invasion and plant biology by providing novel insights into the processes underlying range expansion, adaptation, and ultimately, evolution of introduced species. Title: Mechanisms of Adaptation in the Newly Invasive Species <i>Brachypodium sylvaticum</i> (Hudson) Beauv. Author: Marchini, Gina Lola Year: 2015 It is common knowledge that invasive species cause worldwide ecological and economic damage, and are nearly impossible to eradicate. However, upon introduction to a novel environment, alien species should be the underdogs: They are present in small numbers, possess low genetic diversity, and have not adapted to the climate and competitors present in the new habitat. So, how are alien species able to invade an environment occupied by native species that have already adapted to the local environment? To discover some answers to this apparent paradox I conducted four ecological genetic studies that utilized the invasive species Brachypodium sylvaticum (Hudson) Beauv. to determine mechanisms contributing to adaptation and success in the novel habitat. The first study used simulations and experiments to test the hypothesis that genetic purging, the process where genetic load is reduced by selection against the recessive deleterious alleles expressed in the homozygous state, promotes invasive range expansion. I found that homozygous populations on B. sylvaticum's range periphery displayed lower inbreeding depression compared to heterozygous populations near introduction sites. Empirical tests with B. sylvaticum further demonstrate that purging of genetic load is a plausible scenario promoting range expansion during invasion. Next, I explored how the interaction between population genetic diversity and the environment contributed to the establishment and spread of Brachypodium sylvaticum. I found that nitrogen application increases both final size and shoot biomass for B. sylvaticum individuals from source populations with low HS levels to levels found in individuals from populations with high HS. A coefficient of relative competition intensity index (RCI) displayed reduced effects of interspecific competition on B. sylvaticum biomass in high nitrogen plots. Results show that elevated nitrogen deposition is a factor that increases establishment of introduced species with historically small effective population sizes. Thirdly, I investigated phenotypic differentiation during the establishment and range expansion of Brachypodium sylvaticum. Utilizing a novel approach, unique alleles were used to determine the genetic probability of contribution from native source regions to invasive regions. These probabilities were integrated into QST-FST comparisons to determine the influence of selection and genetic drift on twelve physiological and anatomical traits associated with drought stress. Phenotypic divergence greater than neutral expectations was found for five traits between native and invasive populations, indicating selective divergence. Results from this study show that the majority of divergence in B. sylvaticum occurred after introduction to the novel environment, but prior to invasive range expansion. The final chapter of my dissertation investigates the adaptive role of genetic differentiation and plasticity for Brachypodium sylvaticum invasion. Plasticity was measured across treatments of contrasting water availability. Linear and nonlinear selection gradients determined the effect of directional and quadratic selection on plasticity and genetic differentiation. Invasive trait divergence was a consequence of post-introduction selection leading to genetic differentiation, as there were no plastic responses to contrasting water availability for any measured traits. Genetic divergence of invasive plants was not consistently in the direction indicated by selection, suggesting limitations of selection that may be a consequence of physical constraints and/or tradeoffs between growth and abiotic tolerance. Results suggest that selection, rather than plasticity, is driving phenotypic change in the invaded environment. The combined volume of these studies contributes significantly to the field of invasion and plant biology by providing novel insights into the processes underlying range expansion, adaptation, and ultimately, evolution of introduced species. Close

• 23. [Article] The Effects of Urbanization and Human Disturbance Upon Plant Community Structure and Bird Species Richness, Diversity, and Abundance in a Natural Forested Area (Forest Park) in Portland, Oregon

  The effects of urbanization and continual human disturbance on the plant and avian communities of Forest Park and forested lands surrounding Portland, Oregon, were studied. I examined characteristics of ...

  Citation × Citation Citation Abstract Copy Title: The Effects of Urbanization and Human Disturbance Upon Plant Community Structure and Bird Species Richness, Diversity, and Abundance in a Natural Forested Area (Forest Park) in Portland, Oregon Author: Broshot, Nancy Ellen Year: 1999 The effects of urbanization and continual human disturbance on the plant and avian communities of Forest Park and forested lands surrounding Portland, Oregon, were studied. I examined characteristics of plant and avian communities at 25 sites, 24 which were in Forest Park and surrounding areas and one which was in the Ancient Forest Preserve (old-growth stand) northwest of Forest Park. Data were analyzed using multiple regression, ANOV A, and Bonferonni/Dunn. Seven variables were selected representing different urbanization gradients. An additional covariable coded for the old-growth stand, allowing it to be used as a control. Many tree variables, especially those related to shade-tolerant species, were positively correlated with both the distance from downtown Portland and the number of houses in the surrounding area, and negatively correlated with the distance from the nearest forest edge; however, many shrub and herbaceous variables were negatively correlated with the distance from downtown Portland. Species diversity for herbaceous and shrub species was greater at more urban sites, but diversity of trees was lower at more urban sites. There were significantly more non-native species of plants in the city section. I found significantly fewer saplings and small trees, especially shade-tolerant species, in the section of Forest Park closest to downtown Portland, although tree mortality was positively correlated with distance from Portland. Summer bird data revealed significant increases in the abundances of urban and edge species at more urban sites, with concomitant reductions in forest species. There were significantly more ground gleaning birds and short distance migratory species. I also found a significantly greater abundance of birds in the old-growth stand during the winter. This increase was positively correlated with the depth of snow in the nearby Cascade Mountains. My results indicate that Forest Park is apparently progressing in a normal successional pattern with the exception of the city section. The reduction in shade tolerant saplings and small trees in the city section suggest that rate of succession has been slower at more urban sites. Avian data suggest that urbanization affects bird species abundance and guild composition in the more urban areas. Title: The Effects of Urbanization and Human Disturbance Upon Plant Community Structure and Bird Species Richness, Diversity, and Abundance in a Natural Forested Area (Forest Park) in Portland, Oregon Author: Broshot, Nancy Ellen Year: 1999 The effects of urbanization and continual human disturbance on the plant and avian communities of Forest Park and forested lands surrounding Portland, Oregon, were studied. I examined characteristics of plant and avian communities at 25 sites, 24 which were in Forest Park and surrounding areas and one which was in the Ancient Forest Preserve (old-growth stand) northwest of Forest Park. Data were analyzed using multiple regression, ANOV A, and Bonferonni/Dunn. Seven variables were selected representing different urbanization gradients. An additional covariable coded for the old-growth stand, allowing it to be used as a control. Many tree variables, especially those related to shade-tolerant species, were positively correlated with both the distance from downtown Portland and the number of houses in the surrounding area, and negatively correlated with the distance from the nearest forest edge; however, many shrub and herbaceous variables were negatively correlated with the distance from downtown Portland. Species diversity for herbaceous and shrub species was greater at more urban sites, but diversity of trees was lower at more urban sites. There were significantly more non-native species of plants in the city section. I found significantly fewer saplings and small trees, especially shade-tolerant species, in the section of Forest Park closest to downtown Portland, although tree mortality was positively correlated with distance from Portland. Summer bird data revealed significant increases in the abundances of urban and edge species at more urban sites, with concomitant reductions in forest species. There were significantly more ground gleaning birds and short distance migratory species. I also found a significantly greater abundance of birds in the old-growth stand during the winter. This increase was positively correlated with the depth of snow in the nearby Cascade Mountains. My results indicate that Forest Park is apparently progressing in a normal successional pattern with the exception of the city section. The reduction in shade tolerant saplings and small trees in the city section suggest that rate of succession has been slower at more urban sites. Avian data suggest that urbanization affects bird species abundance and guild composition in the more urban areas. Close

• 24. [Article] Biostratigraphy of the type Weberg Member, Snowshoe Formation, Grant County, Oregon

  Thirty three species of ammonites are recorded from the composite type section of the Weberg Member of the Snowshoe Formation in the Suplee area, Grant County, Oregon. Holcophylloceras burkei, Euhoploceras ...

  Citation × Citation Citation Abstract Copy Title: Biostratigraphy of the type Weberg Member, Snowshoe Formation, Grant County, Oregon Author: Taylor, David G. Year: 1977 Thirty three species of ammonites are recorded from the composite type section of the Weberg Member of the Snowshoe Formation in the Suplee area, Grant County, Oregon. Holcophylloceras burkei, Euhoploceras westi, E. tubereulosum and Strigoceras taylori are described as new, while four new species belonging to the genera Sonninia [?], Bradfordia, Pseudotoites and Witchellia are not formally named. Three ammonite zonules characterize the ammonite sequence of the type Weberg composite section. The sequence correlates with parts of the standard lower and middle Bajocian (Jurassic) of northwestern Europe. In addition, four associations (paleo-communities) of benthic mega invertebrates, the Gervillia, Protocardia, Isocyprina and Bositra buahii associations are delineated. The type Weberg composite section is a record of a local marine transgression westward onto an island system. The section also represents sedimentation over an irregular pre-Snowshoe topographic high, and indicates a progressive change from proximal to distal source of pre-Snowshoe sediments, from high to low energy conditions, and perhaps a slight deepening of the ocean bottom. Ammonites are rare in the lower division of the Weberg Member, locally present in fine sandy limestones of the lower part of the upper division, abundant and most diverse in silt-rich, clay-poor limestones of the upper part of the upper division, and locally abundant in mudstones of the Warm Springs Member. Recurrent associations of certain ammonite species, strong correlation of the associations with lithofacies and biofacies, and pervasive faunal differences of ammonites between facies indicate in general that the distributional patterns of the ammonites reflect spatial life-habitats. The spotty yet widespread geographic occurrence of several ammonite species suggest they had undergone extensive planktic dispersal, thus ocean currents probably played an important role in their distributional patterns. Title: Biostratigraphy of the type Weberg Member, Snowshoe Formation, Grant County, Oregon Author: Taylor, David G. Year: 1977 Thirty three species of ammonites are recorded from the composite type section of the Weberg Member of the Snowshoe Formation in the Suplee area, Grant County, Oregon. Holcophylloceras burkei, Euhoploceras westi, E. tubereulosum and Strigoceras taylori are described as new, while four new species belonging to the genera Sonninia [?], Bradfordia, Pseudotoites and Witchellia are not formally named. Three ammonite zonules characterize the ammonite sequence of the type Weberg composite section. The sequence correlates with parts of the standard lower and middle Bajocian (Jurassic) of northwestern Europe. In addition, four associations (paleo-communities) of benthic mega invertebrates, the Gervillia, Protocardia, Isocyprina and Bositra buahii associations are delineated. The type Weberg composite section is a record of a local marine transgression westward onto an island system. The section also represents sedimentation over an irregular pre-Snowshoe topographic high, and indicates a progressive change from proximal to distal source of pre-Snowshoe sediments, from high to low energy conditions, and perhaps a slight deepening of the ocean bottom. Ammonites are rare in the lower division of the Weberg Member, locally present in fine sandy limestones of the lower part of the upper division, abundant and most diverse in silt-rich, clay-poor limestones of the upper part of the upper division, and locally abundant in mudstones of the Warm Springs Member. Recurrent associations of certain ammonite species, strong correlation of the associations with lithofacies and biofacies, and pervasive faunal differences of ammonites between facies indicate in general that the distributional patterns of the ammonites reflect spatial life-habitats. The spotty yet widespread geographic occurrence of several ammonite species suggest they had undergone extensive planktic dispersal, thus ocean currents probably played an important role in their distributional patterns. Close

• 25. [Article] Live Diatoms as Indicators of Urban Stormwater Runoff

  Diatom bioassessment of streams/rivers does not distinguish between live (cells with intact chloroplasts) and dead (empty cells) individuals, even though most diatom samples collected from the field will ...

  Citation × Citation Citation Abstract Copy Title: Live Diatoms as Indicators of Urban Stormwater Runoff Author: Gillett, Nadia D., Oudsema, Maggie E., Steinman, Alan D. Year: 2017 Diatom bioassessment of streams/rivers does not distinguish between live (cells with intact chloroplasts) and dead (empty cells) individuals, even though most diatom samples collected from the field will be composed of a mixture of both. This study aimed to evaluate whether percentage of live diatoms (PLD), live diatom density and chlorophyll a, and diatom species compositions can be used as indicators of hydrologic disturbance in an urban stream. We deployed artificial substrates on a monthly basis and collected periphyton samples weekly over the course of one calendar year (n = 182) in three tributaries of urbanized Ruddiman Creek (Michigan, USA). We also collected samples before and after six major storm events (>0.5 cm rain). We found no temporal patterns in PLD (Mann-Kendall test p > 0.05) or species composition (non-metric multidimensional scaling (NMDS) ordination), which may be explained by a diatom composition already tolerant to frequent disturbance. There was no difference in PLD before and after storm events, which might partially be explained by their disturbance resistance due to different assemblage ages (1, 2, and 4 weeks old) before the storms. High flow had differential effects on diatom species; loosely attached Navicula and Nitzschia species were more easily removed compared to stalk-forming Gomphonema parvulum. The most important environmental variable that was found to affect live diatom density and chlorophyll was stream width, which has an indirect effect (as a measure of discharge) on periphyton assemblages. In conclusion, PLD was found to be unsuitable metric for assessing stormwater runoff in urban streams where periphyton may not have enough time to form mature communities. Title: Live Diatoms as Indicators of Urban Stormwater Runoff Author: Gillett, Nadia D., Oudsema, Maggie E., Steinman, Alan D. Year: 2017 Diatom bioassessment of streams/rivers does not distinguish between live (cells with intact chloroplasts) and dead (empty cells) individuals, even though most diatom samples collected from the field will be composed of a mixture of both. This study aimed to evaluate whether percentage of live diatoms (PLD), live diatom density and chlorophyll a, and diatom species compositions can be used as indicators of hydrologic disturbance in an urban stream. We deployed artificial substrates on a monthly basis and collected periphyton samples weekly over the course of one calendar year (n = 182) in three tributaries of urbanized Ruddiman Creek (Michigan, USA). We also collected samples before and after six major storm events (>0.5 cm rain). We found no temporal patterns in PLD (Mann-Kendall test p > 0.05) or species composition (non-metric multidimensional scaling (NMDS) ordination), which may be explained by a diatom composition already tolerant to frequent disturbance. There was no difference in PLD before and after storm events, which might partially be explained by their disturbance resistance due to different assemblage ages (1, 2, and 4 weeks old) before the storms. High flow had differential effects on diatom species; loosely attached Navicula and Nitzschia species were more easily removed compared to stalk-forming Gomphonema parvulum. The most important environmental variable that was found to affect live diatom density and chlorophyll was stream width, which has an indirect effect (as a measure of discharge) on periphyton assemblages. In conclusion, PLD was found to be unsuitable metric for assessing stormwater runoff in urban streams where periphyton may not have enough time to form mature communities. Close

• 26. [Article] Mammals of the Bull Run

  This study of mammals of the Bull Run Planning Unit has a dual character. First, mammals of special scientific or natural history interest such as threatened or endangered species were sought. This was ...

  Citation × Citation Citation Abstract Copy Title: Mammals of the Bull Run Author: Thatcher, Edward M. Year: 1976 This study of mammals of the Bull Run Planning Unit has a dual character. First, mammals of special scientific or natural history interest such as threatened or endangered species were sought. This was in conjunction with a Mt. Hood Bull Run Planning Unit. Second, a zoogeographical study of mammals of the Bull Run was performed. Abundance and distributional data was recorded for each species observed. This data was related to availability to moisture as indicated by plant associations trapped. Difference in habitat utilization along a moisture gradient was investigated as a possible coexistence mechanism for sympatric small mammals in the Bull Run Planning Unit. Title: Mammals of the Bull Run Author: Thatcher, Edward M. Year: 1976 This study of mammals of the Bull Run Planning Unit has a dual character. First, mammals of special scientific or natural history interest such as threatened or endangered species were sought. This was in conjunction with a Mt. Hood Bull Run Planning Unit. Second, a zoogeographical study of mammals of the Bull Run was performed. Abundance and distributional data was recorded for each species observed. This data was related to availability to moisture as indicated by plant associations trapped. Difference in habitat utilization along a moisture gradient was investigated as a possible coexistence mechanism for sympatric small mammals in the Bull Run Planning Unit. Close

• 27. [Article] Responses of Aquatic Non-Native Species to Novel Predator Cues and Increased Mortality

  Lethal biotic interactions strongly influence the potential for aquatic non-native species to establish and endure in habitats to which they are introduced. Predators in the recipient area, including native ...

  Citation × Citation Citation Abstract Copy Title: Responses of Aquatic Non-Native Species to Novel Predator Cues and Increased Mortality Author: Turner, Brian Christopher Year: 2017 Lethal biotic interactions strongly influence the potential for aquatic non-native species to establish and endure in habitats to which they are introduced. Predators in the recipient area, including native and previously established non-native predators, can prevent establishment, limit habitat use, and reduce abundance of non-native species. Management efforts by humans using methods designed to cause mass mortality (e.g., trapping, biocide applications) can reduce or eradicate non-native populations. However, the impacts of predator and human induced mortality may be mitigated by the behavior or population-level responses of a given non-native species. My dissertation examined the responses of non-native aquatic species to the risk of predation by novel (i.e., no previous exposure) predators in the recipient community and indicators of potential compensatory responses by non-native populations to increased mortality resulting from removal efforts. My dissertation addresses four primary questions. 1) Can first generation, naïve invaders recognize and defend against predators found within the region of invasion through the expression of inducible defenses? 2) Can the overcompensatory potential of a population be predicted though examinations of intraspecific interactions of individuals from the population? 3) What is the relationship between removal effort outcome (i.e., successful or unsuccessful reduction of the target population) and compensatory population responses? 4) Is there a relationship between characteristics of removal efforts that are typically available to managers (e.g., target area size, target area connectivity, removal methodology) and compensatory population responses that could indicate the relative likelihood of compensation resulting from removal efforts? An invading species should be more likely to establish if it can successfully identify and defend against predators in the recipient range, such as through the expression of inducible defenses. Inducible defenses are behavioral or physiological changes that reduce an organism's susceptibility to predation. Through a series of laboratory experiments, I tested whether inducible defenses, in the form of increased burrowing depth, may have benefited the early stage of invasion of Nuttallia obscurata (purple varnish clam), an established Northeast Pacific invader. Specimens of N. obscurata were collected from introduced populations in the Northeast Pacific and from a native population in Japan. The clams were exposed to chemical and physical cues from Northeast Pacific crab predators, including the native Metacarcinus magister (Dungeness crab), an abundant and frequent predator of N. obscurata. While introduced N. obscurata increased their burrowing depth in the physical presence of M. magister, clams collected from their native range showed no such response. This lack of increased burrowing depth by naïve clams in response to a predator native to the newly invaded range, but a significant increase in depth for clams from populations established in the range suggests that while inducible defenses likely did not contribute to the initial establishment of N. obscurata in the Northeast Pacific, they may contribute to their continued persistence and expansion in their introduced range. Some efforts to reduce invasive populations have paradoxically led to population increases. This phenomenon, referred to as overcompensation, occurs when strong negative density-dependent interactions are reduced through increased mortality within a population, resulting in an increase in the population's recruitment rate sufficient to increase the population's overall abundance. Increases in a population's recruitment rate can result from reduced cannibalism of juveniles resulting in lower mortality of new recruits, from increased adult reproductive output, which increases the number of potential recruits, or from reductions in size and/or age at maturity of the unharvested population, which increases the number of reproductive individuals. I predicted the overcompensatory potential of a population of Carcinus maenas (European green crab) in Bodega Harbor, California, using a series of laboratory and field experiments examining intraspecific pressures of adults on juveniles in the population. This measure of intraspecific pressure was used to predict the overcompensatory potential of the population in response to increased mortality from ongoing removal efforts. This prediction was then assessed using pre- and post-removal surveys of juvenile recruitment in Bodega Harbor compared to nearby populations, testing for evidence of overcompensation. While adult C. maenas in Bodega Harbor had limited negative impacts on juveniles, I concluded it was unlikely to result in overcompensation. Relative juvenile abundance did not statistically increase in removal compared to reference populations, consistent with my conclusion from the experiments. Increases in recruitment rates can occur as a result of efforts to remove non-native species. This increase in recruitment can result in overcompensation, but more commonly results in compensation, where recruitment rates increase relative to pre-removal recruitment but does not result in in the population's abundance exceeding pre-removal levels. However, a detailed and accurate prediction of the response of a population to harvest is time consuming and data intensive. This is not feasible for most efforts to eradicate non-native species, which have the greatest chance of success when enacted rapidly after detection. For my final chapter, I performed a literature review and accompanying statistical analysis to determine if typically available information related to the removal effort (site size, site connectivity, and removal technique) could be used to determine increased risk of compensation for a given effort to remove aquatic invasive species. Compensation was closely linked to unsuccessful removal efforts and was observed only among efforts utilizing physical removal methods. However, the frequency with which compensation occurred varied with the exact technique employed, occurring most frequently in removal utilizing electrofishing. Additionally, evidence of compensation was more frequent among larger removal areas with variable connectivity. While other predictors (temperature, effort, etc) might add to the predicative power, the findings of the review provide criteria for managers to determine the relative risk of compensation prior to the start of removal. Further understanding of how invasive species respond to lethal biotic interactions, including anthropogenically mediated control measures, can aid in assessing the risk of invasion for a given species and inform managers of the risk of complications resulting from removal efforts. While inducible defenses may contribute to the long-term success of an introduced species in their recipient range, my findings did not support the idea that inducible defenses triggered by predator cues contributed to their initial introduction in this case. However, research on other non-native species and offspring of previously naïve prey would allow for a clearer picture of the role of inducible defenses in the invasion process. Compensation resulting from removal efforts does not guarantee failure, and certain characteristics of removal efforts seem to indicate increased risk of compensation. Together these components help identify how biotic interactions surrounding mortality risk of an invading species help shape the trajectory of invasion. Title: Responses of Aquatic Non-Native Species to Novel Predator Cues and Increased Mortality Author: Turner, Brian Christopher Year: 2017 Lethal biotic interactions strongly influence the potential for aquatic non-native species to establish and endure in habitats to which they are introduced. Predators in the recipient area, including native and previously established non-native predators, can prevent establishment, limit habitat use, and reduce abundance of non-native species. Management efforts by humans using methods designed to cause mass mortality (e.g., trapping, biocide applications) can reduce or eradicate non-native populations. However, the impacts of predator and human induced mortality may be mitigated by the behavior or population-level responses of a given non-native species. My dissertation examined the responses of non-native aquatic species to the risk of predation by novel (i.e., no previous exposure) predators in the recipient community and indicators of potential compensatory responses by non-native populations to increased mortality resulting from removal efforts. My dissertation addresses four primary questions. 1) Can first generation, naïve invaders recognize and defend against predators found within the region of invasion through the expression of inducible defenses? 2) Can the overcompensatory potential of a population be predicted though examinations of intraspecific interactions of individuals from the population? 3) What is the relationship between removal effort outcome (i.e., successful or unsuccessful reduction of the target population) and compensatory population responses? 4) Is there a relationship between characteristics of removal efforts that are typically available to managers (e.g., target area size, target area connectivity, removal methodology) and compensatory population responses that could indicate the relative likelihood of compensation resulting from removal efforts? An invading species should be more likely to establish if it can successfully identify and defend against predators in the recipient range, such as through the expression of inducible defenses. Inducible defenses are behavioral or physiological changes that reduce an organism's susceptibility to predation. Through a series of laboratory experiments, I tested whether inducible defenses, in the form of increased burrowing depth, may have benefited the early stage of invasion of Nuttallia obscurata (purple varnish clam), an established Northeast Pacific invader. Specimens of N. obscurata were collected from introduced populations in the Northeast Pacific and from a native population in Japan. The clams were exposed to chemical and physical cues from Northeast Pacific crab predators, including the native Metacarcinus magister (Dungeness crab), an abundant and frequent predator of N. obscurata. While introduced N. obscurata increased their burrowing depth in the physical presence of M. magister, clams collected from their native range showed no such response. This lack of increased burrowing depth by naïve clams in response to a predator native to the newly invaded range, but a significant increase in depth for clams from populations established in the range suggests that while inducible defenses likely did not contribute to the initial establishment of N. obscurata in the Northeast Pacific, they may contribute to their continued persistence and expansion in their introduced range. Some efforts to reduce invasive populations have paradoxically led to population increases. This phenomenon, referred to as overcompensation, occurs when strong negative density-dependent interactions are reduced through increased mortality within a population, resulting in an increase in the population's recruitment rate sufficient to increase the population's overall abundance. Increases in a population's recruitment rate can result from reduced cannibalism of juveniles resulting in lower mortality of new recruits, from increased adult reproductive output, which increases the number of potential recruits, or from reductions in size and/or age at maturity of the unharvested population, which increases the number of reproductive individuals. I predicted the overcompensatory potential of a population of Carcinus maenas (European green crab) in Bodega Harbor, California, using a series of laboratory and field experiments examining intraspecific pressures of adults on juveniles in the population. This measure of intraspecific pressure was used to predict the overcompensatory potential of the population in response to increased mortality from ongoing removal efforts. This prediction was then assessed using pre- and post-removal surveys of juvenile recruitment in Bodega Harbor compared to nearby populations, testing for evidence of overcompensation. While adult C. maenas in Bodega Harbor had limited negative impacts on juveniles, I concluded it was unlikely to result in overcompensation. Relative juvenile abundance did not statistically increase in removal compared to reference populations, consistent with my conclusion from the experiments. Increases in recruitment rates can occur as a result of efforts to remove non-native species. This increase in recruitment can result in overcompensation, but more commonly results in compensation, where recruitment rates increase relative to pre-removal recruitment but does not result in in the population's abundance exceeding pre-removal levels. However, a detailed and accurate prediction of the response of a population to harvest is time consuming and data intensive. This is not feasible for most efforts to eradicate non-native species, which have the greatest chance of success when enacted rapidly after detection. For my final chapter, I performed a literature review and accompanying statistical analysis to determine if typically available information related to the removal effort (site size, site connectivity, and removal technique) could be used to determine increased risk of compensation for a given effort to remove aquatic invasive species. Compensation was closely linked to unsuccessful removal efforts and was observed only among efforts utilizing physical removal methods. However, the frequency with which compensation occurred varied with the exact technique employed, occurring most frequently in removal utilizing electrofishing. Additionally, evidence of compensation was more frequent among larger removal areas with variable connectivity. While other predictors (temperature, effort, etc) might add to the predicative power, the findings of the review provide criteria for managers to determine the relative risk of compensation prior to the start of removal. Further understanding of how invasive species respond to lethal biotic interactions, including anthropogenically mediated control measures, can aid in assessing the risk of invasion for a given species and inform managers of the risk of complications resulting from removal efforts. While inducible defenses may contribute to the long-term success of an introduced species in their recipient range, my findings did not support the idea that inducible defenses triggered by predator cues contributed to their initial introduction in this case. However, research on other non-native species and offspring of previously naïve prey would allow for a clearer picture of the role of inducible defenses in the invasion process. Compensation resulting from removal efforts does not guarantee failure, and certain characteristics of removal efforts seem to indicate increased risk of compensation. Together these components help identify how biotic interactions surrounding mortality risk of an invading species help shape the trajectory of invasion. Close

• 28. [Article] Pressure dependence of fluorescent and photolytic interferences in HO detection by laser-excited fluorescence

  In the measurement of HO concentrations by laser-excited fluorescence, expansion of the sampled air offers a way to reduce fluorescent and photolytic interference by other species. The decrease in [HO] ...

  Citation × Citation Citation Abstract Copy Title: Pressure dependence of fluorescent and photolytic interferences in HO detection by laser-excited fluorescence Author: Hard, Thomas M., O'Brien, Robert J., Cook, T. B. Year: 1980 In the measurement of HO concentrations by laser-excited fluorescence, expansion of the sampled air offers a way to reduce fluorescent and photolytic interference by other species. The decrease in [HO] upon expansion is balanced by an increase in HO fluorescence yield over a wide range of pressures. Background air fluorescence is reduced if the responsible species have fluorescence yields higher than those of HO. Preliminary experiments indicate that most of the fluorescence observed in laboratory air is due to such species. Upon expansion, the suppression of fluorescent interference can be no greater than the reduction in pressure, whereas the suppression of photolytic interference can be no less. Title: Pressure dependence of fluorescent and photolytic interferences in HO detection by laser-excited fluorescence Author: Hard, Thomas M., O'Brien, Robert J., Cook, T. B. Year: 1980 In the measurement of HO concentrations by laser-excited fluorescence, expansion of the sampled air offers a way to reduce fluorescent and photolytic interference by other species. The decrease in [HO] upon expansion is balanced by an increase in HO fluorescence yield over a wide range of pressures. Background air fluorescence is reduced if the responsible species have fluorescence yields higher than those of HO. Preliminary experiments indicate that most of the fluorescence observed in laboratory air is due to such species. Upon expansion, the suppression of fluorescent interference can be no greater than the reduction in pressure, whereas the suppression of photolytic interference can be no less. Close

• 29. [Article] The significance of hypovolemia in dehydrational death in anurans

  The importance of hypovolemia in dehydrational death was assessed in two anuran species. Xenopus laeyis, a species which experiences a significant reduction in circulating plasma volume with dehydration, ...

  Citation × Citation Citation Abstract Copy Title: The significance of hypovolemia in dehydrational death in anurans Author: Kimmel, Peter Blair Year: 1985 The importance of hypovolemia in dehydrational death was assessed in two anuran species. Xenopus laeyis, a species which experiences a significant reduction in circulating plasma volume with dehydration, was used to evaluate the role of sympathetic reflex compensation in hypovolemia. Adrenergic blockade with propranolol or phenoxybenzamine produced no significant reduction in dehydration tolerance in this species, although β-blockade with propranolol appeared to have a minor effect. The role of hypovolemic shock in the terminal circulatory collapse that precedes death in dehydrating anurans was investigated in the toad, Bufo marinus. The activity of lysosomal proteinases (cathepsins) was used as an indicator of the shock state. An assay was developed for the determination of cathepsin activity in toad plasma and was used to demonstrate the presence of proteinases similar in pH dependence to mammalian cathepsins Bl and D. Plasma cathepsin D-type activity increased with dehydration in toads but was not significantly different from the activity in controls or in toads subjected to splanchnic artery occlusion. Toads appear to maintain plasma volume to 20% water loss at the expense of other extracellular fluids. These results do not support the hypothesis that hypovolemia is a direct cause of dehydrational death in anurans. Title: The significance of hypovolemia in dehydrational death in anurans Author: Kimmel, Peter Blair Year: 1985 The importance of hypovolemia in dehydrational death was assessed in two anuran species. Xenopus laeyis, a species which experiences a significant reduction in circulating plasma volume with dehydration, was used to evaluate the role of sympathetic reflex compensation in hypovolemia. Adrenergic blockade with propranolol or phenoxybenzamine produced no significant reduction in dehydration tolerance in this species, although β-blockade with propranolol appeared to have a minor effect. The role of hypovolemic shock in the terminal circulatory collapse that precedes death in dehydrating anurans was investigated in the toad, Bufo marinus. The activity of lysosomal proteinases (cathepsins) was used as an indicator of the shock state. An assay was developed for the determination of cathepsin activity in toad plasma and was used to demonstrate the presence of proteinases similar in pH dependence to mammalian cathepsins Bl and D. Plasma cathepsin D-type activity increased with dehydration in toads but was not significantly different from the activity in controls or in toads subjected to splanchnic artery occlusion. Toads appear to maintain plasma volume to 20% water loss at the expense of other extracellular fluids. These results do not support the hypothesis that hypovolemia is a direct cause of dehydrational death in anurans. Close

• 30. [Article] 2014 Aquatic Weed Surveys in Timothy Lake, Lake Harriet, North Fork Reservoir, Faraday Lake, and Estacada Lake

  The Clackamas River Hydroelectric Project No. 2195 (Project) is located on the Oak Grove Fork of the Clackamas River and the mainstem of the Clackamas River in Clackamas County, Oregon. Reservoirs included ...

  Citation × Citation Citation Abstract Copy Title: 2014 Aquatic Weed Surveys in Timothy Lake, Lake Harriet, North Fork Reservoir, Faraday Lake, and Estacada Lake Author: Miller, Rich, Sytsma, Mark D., Brittain, Jeffrey Thomas Year: 2014 The Clackamas River Hydroelectric Project No. 2195 (Project) is located on the Oak Grove Fork of the Clackamas River and the mainstem of the Clackamas River in Clackamas County, Oregon. Reservoirs included in the Project include Timothy Lake, Lake Harriet, North Fork Reservoir, Faraday Lake, and Estacada Lake. The operator of the Project, Portland General Electric (PGE), was issued a license on December 21, 2010 by the Federal Energy Regulatory Commission (FERC) for continued operations and maintenance. The Final Environmental Impact Statement (FEIS) for the license noted that regular surveys for invasive aquatic weed species would be conducted as part of the Project’s Vegetation Management Plan. The term “aquatic weed” is used here to refer to any non-native aquatic plant species. Information from repeated aquatic surveys will help determine native species distributions and the need for treatment of problematic aquatic weed species, particularly hydrilla (Hydrilla verticillata), Brazilian elodea (Egeria densa), and Eurasian watermilfoil (Myriophyllum spicatum). Surveys conducted for PGE by Portland State University (PSU) in Timothy Lake, Lake Harriet, and North Fork Reservoir in 2011 did not locate any problematic submerged or floating leaved aquatic weed species. Earlier surveys of Timothy Lake, and Timothy Lake and Lake Harriet, also indicated the reservoirs were free of aquatic weeds. Heaton et al. (1996) noted that the native species Bidens beckii was present and had the potential to become weedy, however, this species was not found during the 2004 or 2011 surveys. This report covers the results of follow up aquatic vegetation surveys conducted in Lake Harriet, Timothy Lake, and North Fork Reservoir between August 14 and August 21, 2014, as well as new surveys of Faraday Lake and Estacada Lake. Shoreline surveys for emergent invasive species such as yellow flag iris (Iris pseudacorus) and purple loosestrife (Lythrum salicaria) were included in surveys for the first time. Title: 2014 Aquatic Weed Surveys in Timothy Lake, Lake Harriet, North Fork Reservoir, Faraday Lake, and Estacada Lake Author: Miller, Rich, Sytsma, Mark D., Brittain, Jeffrey Thomas Year: 2014 The Clackamas River Hydroelectric Project No. 2195 (Project) is located on the Oak Grove Fork of the Clackamas River and the mainstem of the Clackamas River in Clackamas County, Oregon. Reservoirs included in the Project include Timothy Lake, Lake Harriet, North Fork Reservoir, Faraday Lake, and Estacada Lake. The operator of the Project, Portland General Electric (PGE), was issued a license on December 21, 2010 by the Federal Energy Regulatory Commission (FERC) for continued operations and maintenance. The Final Environmental Impact Statement (FEIS) for the license noted that regular surveys for invasive aquatic weed species would be conducted as part of the Project’s Vegetation Management Plan. The term “aquatic weed” is used here to refer to any non-native aquatic plant species. Information from repeated aquatic surveys will help determine native species distributions and the need for treatment of problematic aquatic weed species, particularly hydrilla (Hydrilla verticillata), Brazilian elodea (Egeria densa), and Eurasian watermilfoil (Myriophyllum spicatum). Surveys conducted for PGE by Portland State University (PSU) in Timothy Lake, Lake Harriet, and North Fork Reservoir in 2011 did not locate any problematic submerged or floating leaved aquatic weed species. Earlier surveys of Timothy Lake, and Timothy Lake and Lake Harriet, also indicated the reservoirs were free of aquatic weeds. Heaton et al. (1996) noted that the native species Bidens beckii was present and had the potential to become weedy, however, this species was not found during the 2004 or 2011 surveys. This report covers the results of follow up aquatic vegetation surveys conducted in Lake Harriet, Timothy Lake, and North Fork Reservoir between August 14 and August 21, 2014, as well as new surveys of Faraday Lake and Estacada Lake. Shoreline surveys for emergent invasive species such as yellow flag iris (Iris pseudacorus) and purple loosestrife (Lythrum salicaria) were included in surveys for the first time. Close

• 31. [Article] Avian population trends within the evolving agricultural landscape of the eastern and central United States

  State-level Breeding Bird Survey (1980-1998) and U.S. Department of Agriculture statistics were used to test the hypothesis that changes in agricultural land use within the eastern and central U.S. have ...

  Citation × Citation Citation Abstract Copy Title: Avian population trends within the evolving agricultural landscape of the eastern and central United States Author: Murphy, Michael T. Year: 2003 State-level Breeding Bird Survey (1980-1998) and U.S. Department of Agriculture statistics were used to test the hypothesis that changes in agricultural land use within the eastern and central U.S. have driven population trends of grassland and shrub habitat birds over the past two decades. The degree to which population trends differed between grassland and shrub habitats was evaluated with respect to migratory and nesting behavior. Grassland birds declined significantly between 1980 and 1999, but, on average, shrub habitat species did not. Grassland-breeding, long-distance migrants exhibited the strongest negative trends. Most species (78%; n = 63) exhibited at least one significant association between population trends and changes in agricultural land use, and in most, land use "explained" 25-30% of the variation in population trends among states. Changes in the farmland landscape accounted for more of the interstate variability of population trends of short-distance migrants than of both long-distance migrants and residents, and that variability was greater in grassland than shrub species. Declines in the area of rangeland and cover crops were followed by population declines and increases, respectively, by many species. Increases of land in the Conservation Reserve Program had negative associations with population trends of some shrub species. The results indicate that grassland birds have declined strongly over the past two decades, and that regardless of migratory behavior or nesting habits, avian population trends are linked strongly to changes in agricultural land use within North America. Title: Avian population trends within the evolving agricultural landscape of the eastern and central United States Author: Murphy, Michael T. Year: 2003 State-level Breeding Bird Survey (1980-1998) and U.S. Department of Agriculture statistics were used to test the hypothesis that changes in agricultural land use within the eastern and central U.S. have driven population trends of grassland and shrub habitat birds over the past two decades. The degree to which population trends differed between grassland and shrub habitats was evaluated with respect to migratory and nesting behavior. Grassland birds declined significantly between 1980 and 1999, but, on average, shrub habitat species did not. Grassland-breeding, long-distance migrants exhibited the strongest negative trends. Most species (78%; n = 63) exhibited at least one significant association between population trends and changes in agricultural land use, and in most, land use "explained" 25-30% of the variation in population trends among states. Changes in the farmland landscape accounted for more of the interstate variability of population trends of short-distance migrants than of both long-distance migrants and residents, and that variability was greater in grassland than shrub species. Declines in the area of rangeland and cover crops were followed by population declines and increases, respectively, by many species. Increases of land in the Conservation Reserve Program had negative associations with population trends of some shrub species. The results indicate that grassland birds have declined strongly over the past two decades, and that regardless of migratory behavior or nesting habits, avian population trends are linked strongly to changes in agricultural land use within North America. Close

• 32. [Article] Phylogeography of Two Species of the Genus Apochthonius Chamberlin, 1929, in the Pacific Northwest (Arachnida, Pseudoscorpiones)

  I used mitochondrial COI sequence data from forty one individuals to investigate phylogenetic relationships among populations of two morphologically similar species of the pseudoscorpion genus Apochthonius, ...

  Citation × Citation Citation Abstract Copy Title: Phylogeography of Two Species of the Genus Apochthonius Chamberlin, 1929, in the Pacific Northwest (Arachnida, Pseudoscorpiones) Author: Welch, Brandi Lynn Year: 2016 I used mitochondrial COI sequence data from forty one individuals to investigate phylogenetic relationships among populations of two morphologically similar species of the pseudoscorpion genus Apochthonius, A. minimus and A. occidentalis, in western Washington, Oregon, and northern California. My goal was to assess whether genetic structure in the two species was congruent with geography. Many plant and animal species in the Pacific Northwestern United States have shown patterns of genetic differentiation that follow both north-south and east-west trends, indicating that geologic and climatic events in the past separated populations to the extent that they became genetically differentiated. A distinct geographic pattern emerged within A. occidentalis, with at least one northern and two southern populations. A clade containing all A. minimus sequences was recovered. However, this clade falls within the larger clade of A. occidentalis, rendering A. occidentalis paraphyletic. Furthermore, the A. minimus sequences showed north-south geographic structuring within the clade. Population genetic analyses were performed based on geographic location within the Pacific Northwest. I found high genetic differentiation coupled with low gene flow between most populations, with the exception of the Portland and North Coast Range populations. These data suggest the presence of more than two species of Apochthonius in the Pacific Northwest. Title: Phylogeography of Two Species of the Genus Apochthonius Chamberlin, 1929, in the Pacific Northwest (Arachnida, Pseudoscorpiones) Author: Welch, Brandi Lynn Year: 2016 I used mitochondrial COI sequence data from forty one individuals to investigate phylogenetic relationships among populations of two morphologically similar species of the pseudoscorpion genus Apochthonius, A. minimus and A. occidentalis, in western Washington, Oregon, and northern California. My goal was to assess whether genetic structure in the two species was congruent with geography. Many plant and animal species in the Pacific Northwestern United States have shown patterns of genetic differentiation that follow both north-south and east-west trends, indicating that geologic and climatic events in the past separated populations to the extent that they became genetically differentiated. A distinct geographic pattern emerged within A. occidentalis, with at least one northern and two southern populations. A clade containing all A. minimus sequences was recovered. However, this clade falls within the larger clade of A. occidentalis, rendering A. occidentalis paraphyletic. Furthermore, the A. minimus sequences showed north-south geographic structuring within the clade. Population genetic analyses were performed based on geographic location within the Pacific Northwest. I found high genetic differentiation coupled with low gene flow between most populations, with the exception of the Portland and North Coast Range populations. These data suggest the presence of more than two species of Apochthonius in the Pacific Northwest. Close

• 33. [Article] Climate Change Effects on Northern Great Lake (USA) Forests: A Case for Preserving Diversity

  Under business as usual (BAU) management, stresses posed by climate change may exceed the ability of Great Lake forests to adapt. Temperature and precipitation projections in the Great Lakes region are ...

  Citation × Citation Citation Abstract Copy Title: Climate Change Effects on Northern Great Lake (USA) Forests: A Case for Preserving Diversity Author: Duveneck, Matthew Joshua, Scheller, Robert M., White, Mark A., Handler, Stephen D., Ravenscroft, Catherine Year: 2014 Under business as usual (BAU) management, stresses posed by climate change may exceed the ability of Great Lake forests to adapt. Temperature and precipitation projections in the Great Lakes region are expected to change forest tree species composition and productivity. It is unknown how a change in productivity and/or tree species diversity due to climate change will affect the relationship between diversity and productivity. We assessed how forests in two landscapes (i.e., northern lower Michigan and northeastern Minnesota, USA) would respond to climate change and explored the diversityproductivity relationship under climate change. In addition, we explored how tree species diversity varied across landscapes by soil type, climate, and management. We used a spatially dynamic forest ecosystem model, LANDIS-II, to simulate BAU forest management under three climate scenarios (current climate, low emissions, and high emissions) in each landscape. We found a positive relationship between diversity and productivity only under a high emissions future as productivity declined. Within landscapes, climate change simulations resulted in the highest diversity in the coolest climate regions and lowest diversity in the warmest climate region in Minnesota and Michigan, respectively. Simulated productivity declined in both landscapes under the high emissions climate scenario as species such as balsam fir (Abies balsamea) declined in abundance. In the Great Lakes region, a high emissions future may decrease forest productivity creating a more positive relationship between diversity and productivity. Maintaining a diversity of tree species may become increasingly important to maintain the adaptive capacity of forests. Title: Climate Change Effects on Northern Great Lake (USA) Forests: A Case for Preserving Diversity Author: Duveneck, Matthew Joshua, Scheller, Robert M., White, Mark A., Handler, Stephen D., Ravenscroft, Catherine Year: 2014 Under business as usual (BAU) management, stresses posed by climate change may exceed the ability of Great Lake forests to adapt. Temperature and precipitation projections in the Great Lakes region are expected to change forest tree species composition and productivity. It is unknown how a change in productivity and/or tree species diversity due to climate change will affect the relationship between diversity and productivity. We assessed how forests in two landscapes (i.e., northern lower Michigan and northeastern Minnesota, USA) would respond to climate change and explored the diversityproductivity relationship under climate change. In addition, we explored how tree species diversity varied across landscapes by soil type, climate, and management. We used a spatially dynamic forest ecosystem model, LANDIS-II, to simulate BAU forest management under three climate scenarios (current climate, low emissions, and high emissions) in each landscape. We found a positive relationship between diversity and productivity only under a high emissions future as productivity declined. Within landscapes, climate change simulations resulted in the highest diversity in the coolest climate regions and lowest diversity in the warmest climate region in Minnesota and Michigan, respectively. Simulated productivity declined in both landscapes under the high emissions climate scenario as species such as balsam fir (Abies balsamea) declined in abundance. In the Great Lakes region, a high emissions future may decrease forest productivity creating a more positive relationship between diversity and productivity. Maintaining a diversity of tree species may become increasingly important to maintain the adaptive capacity of forests. Close

• 34. [Article] The physiology and biochemistry of isolated skeletal muscle mitochondria : a comparative study

  The physiological limit to maximum aerobic capacity (VO2max) in vertebrates has been attributed to cardiovascular oxygen delivery, to the ability of the muscle cells to consume oxygen, or to a fine-tuned ...

  Citation × Citation Citation Abstract Copy Title: The physiology and biochemistry of isolated skeletal muscle mitochondria : a comparative study Author: Wagner, Mark Lowell Year: 1989 The physiological limit to maximum aerobic capacity (VO2max) in vertebrates has been attributed to cardiovascular oxygen delivery, to the ability of the muscle cells to consume oxygen, or to a fine-tuned development of all components of the respiratory system such that no single component can be shown to limit VO2max. The above hypotheses have each been developed using different experiments with different animals. The comparative studies uniting these animals and methods are limited. In order to further our knowledge of the cellular limit to VO2max, skeletal muscle mitochondria were isolated from species representing four vertebrate classes, and endothermic and ectothermic physiology. Mitochondrial VO2 was measured at 15, 25 and 35°C and the results were compared between species and endothermic and ectothermic groups. Mitochondrial enzyme activities were measured at the three treatment temperatures to ascertain which enzyme activity best represents VO2max for all vertebrates. Cytochrome difference spectra were measured to determine the concentrations of mitochondrial cytochromes c+c1 . The results show that mitochondria are unique in all species tested. Each species has its own response to changing temperature and its own mitochondrial enzyme activity profile. In addition, in vitro measurements of mitochondrial VO2 for all species show rates significantly higher than those estimated from whole organism measurements of VO2max, suggesting that mitochondrial oxygen uptake is not a factor limiting organismal V02max. The Q10 for mitochondrial VO2 differed significantly between groups, indicating that differences in VO2max between endotherms and ectotherms cannot be explained solely on the basis of temperature. The activation energy (Ea) of mitochondrial VO2 was significantly higher in endotherms compared to ectotherms. Mitochondrial enzyme activities did not show the same Q10 and Ea differences as the intact mitochondria. Since enzyme activities were measured on mitochondria disrupted with either detergent or sonication, physical properties of the mitochondrial inner membrane are suggested as being responsible for these differences. Title: The physiology and biochemistry of isolated skeletal muscle mitochondria : a comparative study Author: Wagner, Mark Lowell Year: 1989 The physiological limit to maximum aerobic capacity (VO2max) in vertebrates has been attributed to cardiovascular oxygen delivery, to the ability of the muscle cells to consume oxygen, or to a fine-tuned development of all components of the respiratory system such that no single component can be shown to limit VO2max. The above hypotheses have each been developed using different experiments with different animals. The comparative studies uniting these animals and methods are limited. In order to further our knowledge of the cellular limit to VO2max, skeletal muscle mitochondria were isolated from species representing four vertebrate classes, and endothermic and ectothermic physiology. Mitochondrial VO2 was measured at 15, 25 and 35°C and the results were compared between species and endothermic and ectothermic groups. Mitochondrial enzyme activities were measured at the three treatment temperatures to ascertain which enzyme activity best represents VO2max for all vertebrates. Cytochrome difference spectra were measured to determine the concentrations of mitochondrial cytochromes c+c1 . The results show that mitochondria are unique in all species tested. Each species has its own response to changing temperature and its own mitochondrial enzyme activity profile. In addition, in vitro measurements of mitochondrial VO2 for all species show rates significantly higher than those estimated from whole organism measurements of VO2max, suggesting that mitochondrial oxygen uptake is not a factor limiting organismal V02max. The Q10 for mitochondrial VO2 differed significantly between groups, indicating that differences in VO2max between endotherms and ectotherms cannot be explained solely on the basis of temperature. The activation energy (Ea) of mitochondrial VO2 was significantly higher in endotherms compared to ectotherms. Mitochondrial enzyme activities did not show the same Q10 and Ea differences as the intact mitochondria. Since enzyme activities were measured on mitochondria disrupted with either detergent or sonication, physical properties of the mitochondrial inner membrane are suggested as being responsible for these differences. Close

• 35. [Article] Biodiversity: Connecting with the Tapestry of Life

  Biodiversity is the extraordinary variety of life on Earth – from genes and species to ecosystems and the valuable functions they perform. E.O. Wilson, the noted biologist and author who coined the term ...

  Citation × Citation Citation Abstract Copy Title: Biodiversity: Connecting with the Tapestry of Life Author: Granek, Elise F., Dallmeier, Francisco, Alonso, Alfonso, Raven, Peter H. Year: 2001 Biodiversity is the extraordinary variety of life on Earth – from genes and species to ecosystems and the valuable functions they perform. E.O. Wilson, the noted biologist and author who coined the term “biodiversity,” explains it as “the very stuff of life.” Species and the ecosystems in which they live are indelibly linked. Conversion or loss of ecosystems inevitably impairs the species that depend on them. As well, changes in the life cycle of one species could impact the life cycles of many other species (including humans), alter ecosystems and ecosystem functions, and contribute to local, regional and, ultimately, global changes. Life as we know it will not be the same if our rich biodiversity heritage is dramatically altered. And the signs indicate that this is precisely what is happening. Biodiversity is threatened, and not because of catastrophic events such as the asteroid crash that scientists believe caused the extinction of the dinosaurs. The current threat to biodiversity, and thus to the tapestry of life, stems primarily from expanding human populations and increased human consumption of natural resources. Fortunately, together we can take steps to protect our rich biodiversity. The Smithsonian Institution’s Program on Monitoring and Assessment of Biodiversity, under the Conservation and Research Center of the National Zoological Park, and the President’s Committee of Advisors on Science and Technology worked together to prepare this booklet. It explains what biodiversity is, why it is so important, why it is threatened, and what can be done to conserve this valuable resource. Read on to learn more about what we can all do to help. Title: Biodiversity: Connecting with the Tapestry of Life Author: Granek, Elise F., Dallmeier, Francisco, Alonso, Alfonso, Raven, Peter H. Year: 2001 Biodiversity is the extraordinary variety of life on Earth – from genes and species to ecosystems and the valuable functions they perform. E.O. Wilson, the noted biologist and author who coined the term “biodiversity,” explains it as “the very stuff of life.” Species and the ecosystems in which they live are indelibly linked. Conversion or loss of ecosystems inevitably impairs the species that depend on them. As well, changes in the life cycle of one species could impact the life cycles of many other species (including humans), alter ecosystems and ecosystem functions, and contribute to local, regional and, ultimately, global changes. Life as we know it will not be the same if our rich biodiversity heritage is dramatically altered. And the signs indicate that this is precisely what is happening. Biodiversity is threatened, and not because of catastrophic events such as the asteroid crash that scientists believe caused the extinction of the dinosaurs. The current threat to biodiversity, and thus to the tapestry of life, stems primarily from expanding human populations and increased human consumption of natural resources. Fortunately, together we can take steps to protect our rich biodiversity. The Smithsonian Institution’s Program on Monitoring and Assessment of Biodiversity, under the Conservation and Research Center of the National Zoological Park, and the President’s Committee of Advisors on Science and Technology worked together to prepare this booklet. It explains what biodiversity is, why it is so important, why it is threatened, and what can be done to conserve this valuable resource. Read on to learn more about what we can all do to help. Close

• 36. [Article] OSMB Final Report: Task 6. Tenmile Lake Boat Wash Effectiveness Monitoring

  Public awareness of aquatic invasive species and proper boat cleaning procedures may prove to be beneficial in reducing the transport and establishment of aquatic invasive species like New Zealand mud ...

  Citation × Citation Citation Abstract Copy Title: OSMB Final Report: Task 6. Tenmile Lake Boat Wash Effectiveness Monitoring Author: Cimino, Samuel, Strecker, Angela L. Year: 2014 Public awareness of aquatic invasive species and proper boat cleaning procedures may prove to be beneficial in reducing the transport and establishment of aquatic invasive species like New Zealand mud snails and zebra and quagga mussels as well as hydrilla and Eurasian watermilfoil. The primary objectives of this research project were to observe the use and determine the efficacy of a public boat wash station as well as increase the public’s awareness of proper boat cleaning procedures and aquatic invasive species. The Tenmile Lakes Basin Partnership, Oregon State Marine Board, and the United States Forest Service (USFS) have undertaken an initiative to increase public awareness of invasive species and proper cleaning procedures by building a boat wash station at the Tenmile Lake public boat launch. In the summer of 2012, 199 qualitative human subject surveys were administered at Tenmile Lake in Lakeside, Oregon to boaters on their boating habits and knowledge of invasive species prior to building the boat wash (“pre-boat wash”). An extension of the 2012 study was conducted in the summer of 2013 on 200 boaters after the completion of the Tenmile Lake boat wash station (“post-boat wash”). Comparisons were made on the observations and answers of boaters prior to and after the boat wash installation. Of the boaters surveyed in the pre-boat wash field season, 75.9% of boaters claimed they would use a boat wash station at Tenmile Lake. The actual use of the boat wash station based on observations made by the field researcher during the post-boat wash field season indicated only 38.5% of surveyed boaters used the station. Furthermore, more than 20% of boaters could not verbally identify an invasive species in either field season when asked their awareness of aquatic invasive species. However, the majority of boaters surveyed at Tenmile Lake in the pre-boat wash field season (63.3%) and post-boat wash field season (66%) were aware of the phrase “Clean, Drain, Dry”. These results identify a disconnect in what boaters say and what boaters do and the knowledge gaps boaters have on aquatic invasive species, but these results also identify a growing awareness of proper boat cleaning procedures. Title: OSMB Final Report: Task 6. Tenmile Lake Boat Wash Effectiveness Monitoring Author: Cimino, Samuel, Strecker, Angela L. Year: 2014 Public awareness of aquatic invasive species and proper boat cleaning procedures may prove to be beneficial in reducing the transport and establishment of aquatic invasive species like New Zealand mud snails and zebra and quagga mussels as well as hydrilla and Eurasian watermilfoil. The primary objectives of this research project were to observe the use and determine the efficacy of a public boat wash station as well as increase the public’s awareness of proper boat cleaning procedures and aquatic invasive species. The Tenmile Lakes Basin Partnership, Oregon State Marine Board, and the United States Forest Service (USFS) have undertaken an initiative to increase public awareness of invasive species and proper cleaning procedures by building a boat wash station at the Tenmile Lake public boat launch. In the summer of 2012, 199 qualitative human subject surveys were administered at Tenmile Lake in Lakeside, Oregon to boaters on their boating habits and knowledge of invasive species prior to building the boat wash (“pre-boat wash”). An extension of the 2012 study was conducted in the summer of 2013 on 200 boaters after the completion of the Tenmile Lake boat wash station (“post-boat wash”). Comparisons were made on the observations and answers of boaters prior to and after the boat wash installation. Of the boaters surveyed in the pre-boat wash field season, 75.9% of boaters claimed they would use a boat wash station at Tenmile Lake. The actual use of the boat wash station based on observations made by the field researcher during the post-boat wash field season indicated only 38.5% of surveyed boaters used the station. Furthermore, more than 20% of boaters could not verbally identify an invasive species in either field season when asked their awareness of aquatic invasive species. However, the majority of boaters surveyed at Tenmile Lake in the pre-boat wash field season (63.3%) and post-boat wash field season (66%) were aware of the phrase “Clean, Drain, Dry”. These results identify a disconnect in what boaters say and what boaters do and the knowledge gaps boaters have on aquatic invasive species, but these results also identify a growing awareness of proper boat cleaning procedures. Close

• 37. [Article] Stratigraphy and sedimentation of the Spencer Formation in Yamhill and Washington counties, Oregon

  The Spencer Formation in Yamhill and Washington Counties, Oregon, is exposed in a narrow belt 27 km long, from 1/4 to 3 km wide and with a maximum thickness of about 400 m. The formation is composed entirely ...

  Citation × Citation Citation Abstract Copy Title: Stratigraphy and sedimentation of the Spencer Formation in Yamhill and Washington counties, Oregon Author: Al-Azzaby, Fathi Ayoub Year: 1980 The Spencer Formation in Yamhill and Washington Counties, Oregon, is exposed in a narrow belt 27 km long, from 1/4 to 3 km wide and with a maximum thickness of about 400 m. The formation is composed entirely of sandstone with interbedded thin layers of mudstone in the uppermost member. The sedimentary structure and paleoecology indicate a shallow marine depositional environment. The upper member of the Spencer Formation contains more quartz, plagioclase, and hornblende than does the lower member, but K-feldspar is less than that of the lower member. Shallower water conditions for the deposition of the upper member are indicated by sedimentary structures and the abundance of pebbly lenses and coaly material. Eighteen species of megafossils collected from the formation indicate that the Spencer Formation is of the Tejon stage (late Eocene of the West Coast). Title: Stratigraphy and sedimentation of the Spencer Formation in Yamhill and Washington counties, Oregon Author: Al-Azzaby, Fathi Ayoub Year: 1980 The Spencer Formation in Yamhill and Washington Counties, Oregon, is exposed in a narrow belt 27 km long, from 1/4 to 3 km wide and with a maximum thickness of about 400 m. The formation is composed entirely of sandstone with interbedded thin layers of mudstone in the uppermost member. The sedimentary structure and paleoecology indicate a shallow marine depositional environment. The upper member of the Spencer Formation contains more quartz, plagioclase, and hornblende than does the lower member, but K-feldspar is less than that of the lower member. Shallower water conditions for the deposition of the upper member are indicated by sedimentary structures and the abundance of pebbly lenses and coaly material. Eighteen species of megafossils collected from the formation indicate that the Spencer Formation is of the Tejon stage (late Eocene of the West Coast). Close

• 38. [Article] Molecular Changes Associated with Anoxia Tolerance in Austrofundulus limnaeus embryos

  Embryos from the annual killifish Austrofundulus limnaeus have a unique and unequalled ability among vertebrates to withstand extended periods of anoxia (maximum lethal time to 50% mortality of 65 days ...

  Citation × Citation Citation Abstract Copy Title: Molecular Changes Associated with Anoxia Tolerance in Austrofundulus limnaeus embryos Author: Meller, Camie Lynn Year: 2010 Embryos from the annual killifish Austrofundulus limnaeus have a unique and unequalled ability among vertebrates to withstand extended periods of anoxia (maximum lethal time to 50% mortality of 65 days at 25°C). In addition, tolerance of anoxia is gained and subsequently lost during the normal development of this species. Thus, anoxia tolerant and anoxia sensitive individuals can be compared within the same species, making A. limnaeus an excellent model for studying the molecular changes associated with survival of oxygen deprivation in vertebrates. The aim of this project is to analyze the molecular changes associated with anoxia tolerance in the embryos of A. limnaeus. Understanding how the cells of these embryos become tolerant to anoxia will aid in identifying novel therapeutic targets to reduce cell death following periods of ischemia in heart, brain or other tissues. Three major analyses were used to investigate the molecular changes associated with anoxia tolerance in this species. The first was a cell cycle and cell cycle arrest analysis using flow cytometry along with an immunoblot analysis of both positive and negative regulators of cell cycle progression. The second was a cell death analysis utilizing caspase-3/7 activity as well as TUNEL staining. The third was an immunoblot analysis of three different post-translational modifers (ubiquitin, SUMO-1 and SUMO-2/3). The overall findings from this study indicate that the embryos of A. limnaeus do indeed experience some degree of cellular stress (i.e. increase in ubiquitinated proteins, increase in p53 expression, evidence of DNA damage from TUNEL staining and increases in caspase activity) in response to anoxic treatment, even in their most protective state of diapause II. However, despite these observations, the whole organisms are still able to recover from anoxia and do not succumb to death. The overall low levels of TUNEL-positive cells and caspase activity relative to the positive controls indicates that the damage accrued in response to anoxic treatment is minimal. It appears that embryos are able to either "sacrifice" a certain portion of cells or they are able to repair the damage required for resumed development following anoxia. Title: Molecular Changes Associated with Anoxia Tolerance in Austrofundulus limnaeus embryos Author: Meller, Camie Lynn Year: 2010 Embryos from the annual killifish Austrofundulus limnaeus have a unique and unequalled ability among vertebrates to withstand extended periods of anoxia (maximum lethal time to 50% mortality of 65 days at 25°C). In addition, tolerance of anoxia is gained and subsequently lost during the normal development of this species. Thus, anoxia tolerant and anoxia sensitive individuals can be compared within the same species, making A. limnaeus an excellent model for studying the molecular changes associated with survival of oxygen deprivation in vertebrates. The aim of this project is to analyze the molecular changes associated with anoxia tolerance in the embryos of A. limnaeus. Understanding how the cells of these embryos become tolerant to anoxia will aid in identifying novel therapeutic targets to reduce cell death following periods of ischemia in heart, brain or other tissues. Three major analyses were used to investigate the molecular changes associated with anoxia tolerance in this species. The first was a cell cycle and cell cycle arrest analysis using flow cytometry along with an immunoblot analysis of both positive and negative regulators of cell cycle progression. The second was a cell death analysis utilizing caspase-3/7 activity as well as TUNEL staining. The third was an immunoblot analysis of three different post-translational modifers (ubiquitin, SUMO-1 and SUMO-2/3). The overall findings from this study indicate that the embryos of A. limnaeus do indeed experience some degree of cellular stress (i.e. increase in ubiquitinated proteins, increase in p53 expression, evidence of DNA damage from TUNEL staining and increases in caspase activity) in response to anoxic treatment, even in their most protective state of diapause II. However, despite these observations, the whole organisms are still able to recover from anoxia and do not succumb to death. The overall low levels of TUNEL-positive cells and caspase activity relative to the positive controls indicates that the damage accrued in response to anoxic treatment is minimal. It appears that embryos are able to either "sacrifice" a certain portion of cells or they are able to repair the damage required for resumed development following anoxia. Close

• 39. [Article] Carbon Sequestration in Managed Temperate Coniferous Forests Under Climate Change

  Management of temperate forests has the potential to increase carbon sinks and mitigate climate change. However, those opportunities may be confounded by negative climate change impacts. We therefore need ...

  Citation × Citation Citation Abstract Copy Title: Carbon Sequestration in Managed Temperate Coniferous Forests Under Climate Change Author: Dymond, Caren C., Beukema, Sarah, Nitschke, Craig R., Coates, K. David, Scheller, Robert M. Year: 2016 Management of temperate forests has the potential to increase carbon sinks and mitigate climate change. However, those opportunities may be confounded by negative climate change impacts. We therefore need a better understanding of climate change alterations to temperate forest carbon dynamics before developing mitigation strategies. The purpose of this project was to investigate the interactions of species composition, fire, management, and climate change in the Copper–Pine Creek valley, a temperate coniferous forest with a wide range of growing conditions. To do so, we used the LANDIS-II modelling framework including the new Forest Carbon Succession extension to simulate forest ecosystems under four different productivity scenarios, with and without climate change effects, until 2050. Significantly, the new extension allowed us to calculate the net sector productivity, a carbon accounting metric that integrates aboveground and belowground carbon dynamics, disturbances, and the eventual fate of forest products. The model output was validated against literature values. The results implied that the species optimum growing conditions relative to current and future conditions strongly influenced future carbon dynamics. Warmer growing conditions led to increased carbon sinks and storage in the colder and wetter ecoregions but not necessarily in the others. Climate change impacts varied among species and site conditions, and this indicates that both of these components need to be taken into account when considering climate change mitigation activities and adaptive management. The introduction of a new carbon indicator, net sector productivity, promises to be useful in assessing management effectiveness and mitigation activities. Title: Carbon Sequestration in Managed Temperate Coniferous Forests Under Climate Change Author: Dymond, Caren C., Beukema, Sarah, Nitschke, Craig R., Coates, K. David, Scheller, Robert M. Year: 2016 Management of temperate forests has the potential to increase carbon sinks and mitigate climate change. However, those opportunities may be confounded by negative climate change impacts. We therefore need a better understanding of climate change alterations to temperate forest carbon dynamics before developing mitigation strategies. The purpose of this project was to investigate the interactions of species composition, fire, management, and climate change in the Copper–Pine Creek valley, a temperate coniferous forest with a wide range of growing conditions. To do so, we used the LANDIS-II modelling framework including the new Forest Carbon Succession extension to simulate forest ecosystems under four different productivity scenarios, with and without climate change effects, until 2050. Significantly, the new extension allowed us to calculate the net sector productivity, a carbon accounting metric that integrates aboveground and belowground carbon dynamics, disturbances, and the eventual fate of forest products. The model output was validated against literature values. The results implied that the species optimum growing conditions relative to current and future conditions strongly influenced future carbon dynamics. Warmer growing conditions led to increased carbon sinks and storage in the colder and wetter ecoregions but not necessarily in the others. Climate change impacts varied among species and site conditions, and this indicates that both of these components need to be taken into account when considering climate change mitigation activities and adaptive management. The introduction of a new carbon indicator, net sector productivity, promises to be useful in assessing management effectiveness and mitigation activities. Close

• 40. [Article] Riparian Vegetation Assemblages and Associated Landscape Factors Across an Urbanizing Metropolitan Area

  While diverse, native riparian vegetation provides important functions, it remains unclear to what extent these assemblages can persist in urban areas, and under what conditions. We characterized forested ...

  Citation × Citation Citation Abstract Copy Title: Riparian Vegetation Assemblages and Associated Landscape Factors Across an Urbanizing Metropolitan Area Author: Von Behren, Christa, Dietrich, Andrew Evans, Yeakley, J. Alan Year: 2014 While diverse, native riparian vegetation provides important functions, it remains unclear to what extent these assemblages can persist in urban areas, and under what conditions. We characterized forested riparian vegetation communities across an urbanizing metropolitan area and examined their relationships with surrounding land cover. We hypothesized that native and hydrophilic species assemblages would correlate with forest cover in the landscape. For each of 30 sites in the Portland–Vancouver metro area, we recorded vegetation at 1-cm intervals along 3 transects using the line-intercept method. Land cover was characterized at 2 scales: within 500 m of each site and across the entire watershed. Multivariate analyses were used to evaluate relationships between species composition and land cover patterns. A classification tree was created to determine landscape predictors of riparian community type. Results indicated a strong relationship between watershed land cover and vegetation diversity and structural complexity. Our hypothesis of native species association with landscape forest cover in urban riparian areas was supported, but we found no clear relationship between land cover and wetland indicator status. Our results suggest that high watershed forest cover (at least 15%) may enable the persistence of functionally diverse, native riparian vegetation communities in urban landscapes. Keywords: Pacific Northwest, plant diversity, plant ecology, riparian forest, urban ecology, urban watersheds. Title: Riparian Vegetation Assemblages and Associated Landscape Factors Across an Urbanizing Metropolitan Area Author: Von Behren, Christa, Dietrich, Andrew Evans, Yeakley, J. Alan Year: 2014 While diverse, native riparian vegetation provides important functions, it remains unclear to what extent these assemblages can persist in urban areas, and under what conditions. We characterized forested riparian vegetation communities across an urbanizing metropolitan area and examined their relationships with surrounding land cover. We hypothesized that native and hydrophilic species assemblages would correlate with forest cover in the landscape. For each of 30 sites in the Portland–Vancouver metro area, we recorded vegetation at 1-cm intervals along 3 transects using the line-intercept method. Land cover was characterized at 2 scales: within 500 m of each site and across the entire watershed. Multivariate analyses were used to evaluate relationships between species composition and land cover patterns. A classification tree was created to determine landscape predictors of riparian community type. Results indicated a strong relationship between watershed land cover and vegetation diversity and structural complexity. Our hypothesis of native species association with landscape forest cover in urban riparian areas was supported, but we found no clear relationship between land cover and wetland indicator status. Our results suggest that high watershed forest cover (at least 15%) may enable the persistence of functionally diverse, native riparian vegetation communities in urban landscapes. Keywords: Pacific Northwest, plant diversity, plant ecology, riparian forest, urban ecology, urban watersheds. Close

• 41. [Article] An Investigation of Invasion: Boater Knowledge Concerning Aquatic Invasive Species and the Influence of the New Zealand Mud Snail on Benthic Food Webs

  Invasive species are second only to habitat loss as a leading cause of native species displacement and the management of invasive species costs hundreds of billions annually. Invasion is often conceptualized ...

  Citation × Citation Citation Abstract Copy Title: An Investigation of Invasion: Boater Knowledge Concerning Aquatic Invasive Species and the Influence of the New Zealand Mud Snail on Benthic Food Webs Author: Cimino, Samuel Anthony Year: 2016 Invasive species are second only to habitat loss as a leading cause of native species displacement and the management of invasive species costs hundreds of billions annually. Invasion is often conceptualized as a series of stages (Transport, Introduction, Establishment, and Spread), which encourages ecologists to isolate factors that might enable a species to pass from one stage to another and therefore guide prevention or impact management. This thesis addresses each stage of invasion and attempts to determine where management might succeed in preventing invasion or minimizing impacts. The transport and introduction of aquatic invasive species (AIS) was analyzed by conducting a three tier human subjects survey at Tenmile Lake, Oregon over a two year period in which a public boat wash station was built and installed. Assessing boater knowledge of AIS and understanding proper boat cleaning procedure is useful in determining the threat of transport and introduction as overland boater movements is a major vector of AIS. The comparison between pre- and post- boat wash surveys indicate that there is a disconnect between what boaters say they will do and how they actually behave. While 75.9% of boaters from the pre-survey claimed they would use a boat wash station at Tenmile Lake, only 38.5% of post-survey boaters were observed using the station. Furthermore, the surveys identified knowledge gaps of boaters' awareness of AIS. More than 20.0% of boaters surveyed could not verbally name any AIS. To better understand the establishment and spread stages of invasion, I examined the influence of a specific AIS, the New Zealand mud snail (Potamopyrgus antipodarum; NZMS), on benthic food webs throughout three very different aquatic ecosystems (lakes, rivers, and estuaries). Samples of benthic lake, river, and estuarine invertebrates were collected, identified, and counted, and stable isotope analyses (SIA) were conducted on several components of the food web. NZMS densities were found to be dynamic, with population densities fluctuating over time and between locations. A significant negative relationship between NZMS density and community diversity across all ecosystems was found. However, the densities of specific feeding groups had varying positive (omnivores) and negative (herbivores) correlations with NZMS densities. Furthermore, SIA indicated that NZMS don't appear to be competing with native macroinvertebrates for the same food source. NZMS were found to have different influences on each invaded ecosystem, thus management of this particular AIS is difficult once established and spreading. The results of this thesis suggest that prevention of the transport and introduction of NZMS needs to be the focus for future management. Preventative management should include public outreach regarding AIS and proper boat cleaning procedure, and management should also emphasize the need for regional policies and regulations on the transport of AIS rather than site or state specific policies and regulations. Title: An Investigation of Invasion: Boater Knowledge Concerning Aquatic Invasive Species and the Influence of the New Zealand Mud Snail on Benthic Food Webs Author: Cimino, Samuel Anthony Year: 2016 Invasive species are second only to habitat loss as a leading cause of native species displacement and the management of invasive species costs hundreds of billions annually. Invasion is often conceptualized as a series of stages (Transport, Introduction, Establishment, and Spread), which encourages ecologists to isolate factors that might enable a species to pass from one stage to another and therefore guide prevention or impact management. This thesis addresses each stage of invasion and attempts to determine where management might succeed in preventing invasion or minimizing impacts. The transport and introduction of aquatic invasive species (AIS) was analyzed by conducting a three tier human subjects survey at Tenmile Lake, Oregon over a two year period in which a public boat wash station was built and installed. Assessing boater knowledge of AIS and understanding proper boat cleaning procedure is useful in determining the threat of transport and introduction as overland boater movements is a major vector of AIS. The comparison between pre- and post- boat wash surveys indicate that there is a disconnect between what boaters say they will do and how they actually behave. While 75.9% of boaters from the pre-survey claimed they would use a boat wash station at Tenmile Lake, only 38.5% of post-survey boaters were observed using the station. Furthermore, the surveys identified knowledge gaps of boaters' awareness of AIS. More than 20.0% of boaters surveyed could not verbally name any AIS. To better understand the establishment and spread stages of invasion, I examined the influence of a specific AIS, the New Zealand mud snail (Potamopyrgus antipodarum; NZMS), on benthic food webs throughout three very different aquatic ecosystems (lakes, rivers, and estuaries). Samples of benthic lake, river, and estuarine invertebrates were collected, identified, and counted, and stable isotope analyses (SIA) were conducted on several components of the food web. NZMS densities were found to be dynamic, with population densities fluctuating over time and between locations. A significant negative relationship between NZMS density and community diversity across all ecosystems was found. However, the densities of specific feeding groups had varying positive (omnivores) and negative (herbivores) correlations with NZMS densities. Furthermore, SIA indicated that NZMS don't appear to be competing with native macroinvertebrates for the same food source. NZMS were found to have different influences on each invaded ecosystem, thus management of this particular AIS is difficult once established and spreading. The results of this thesis suggest that prevention of the transport and introduction of NZMS needs to be the focus for future management. Preventative management should include public outreach regarding AIS and proper boat cleaning procedure, and management should also emphasize the need for regional policies and regulations on the transport of AIS rather than site or state specific policies and regulations. Close

• 42. [Article] Genetic Substructure of Pacific Harbor Seal (Phoca vitulina richardsi) Populations Along the Coasts of Oregon and Washington

  It has been assumed that the considerable dispersal ability of many marine species would prevent genetic divergence in the absence of geographic isolation. However, recent work has shown that many marine ...

  Citation × Citation Citation Abstract Copy Title: Genetic Substructure of Pacific Harbor Seal (Phoca vitulina richardsi) Populations Along the Coasts of Oregon and Washington Author: Dishman, Diana Lynn Year: 2011 It has been assumed that the considerable dispersal ability of many marine species would prevent genetic divergence in the absence of geographic isolation. However, recent work has shown that many marine species often develop differentiation among areas within their known dispersal range. This 'paradox' of marine divergence is particularly important among marine mammal species where behavior can restrict gene flow. To investigate genetic substructure within such a species, I used tissue samples collected from 63 stranded Pacific harbor seals (Phoca vitulina richardsi) in Washington and Oregon between 2006 and 2010 for population stock analysis. DNA was extracted from frozen tissues, and a 551 bp fragment of mtDNA control region sequence and eight microsatellite loci were amplified to investigate localized genetic structure. Minimum spanning network and haplotype frequency analyses of mtDNA sequences indicated that while haplotype lineages are not isolated within a sampling region, there is some evidence of regional differentiation. On the other hand, microsatellite data suggest a lack of substructure among the animals sampled, with only a weak signal of limited gene flow between Puget Sound and coastal areas. Biased dispersal among age classes was also suggested, with juveniles showing less differentiation among areas than adults. Regardless of the historical scenario which has led to this complex pattern of genetic structure in Pacific harbor seals across the Pacific Northwest, my results suggest higher levels of exchange among areas than previously suspected, and will have important consequences for future management considerations for these stocks. Title: Genetic Substructure of Pacific Harbor Seal (Phoca vitulina richardsi) Populations Along the Coasts of Oregon and Washington Author: Dishman, Diana Lynn Year: 2011 It has been assumed that the considerable dispersal ability of many marine species would prevent genetic divergence in the absence of geographic isolation. However, recent work has shown that many marine species often develop differentiation among areas within their known dispersal range. This 'paradox' of marine divergence is particularly important among marine mammal species where behavior can restrict gene flow. To investigate genetic substructure within such a species, I used tissue samples collected from 63 stranded Pacific harbor seals (Phoca vitulina richardsi) in Washington and Oregon between 2006 and 2010 for population stock analysis. DNA was extracted from frozen tissues, and a 551 bp fragment of mtDNA control region sequence and eight microsatellite loci were amplified to investigate localized genetic structure. Minimum spanning network and haplotype frequency analyses of mtDNA sequences indicated that while haplotype lineages are not isolated within a sampling region, there is some evidence of regional differentiation. On the other hand, microsatellite data suggest a lack of substructure among the animals sampled, with only a weak signal of limited gene flow between Puget Sound and coastal areas. Biased dispersal among age classes was also suggested, with juveniles showing less differentiation among areas than adults. Regardless of the historical scenario which has led to this complex pattern of genetic structure in Pacific harbor seals across the Pacific Northwest, my results suggest higher levels of exchange among areas than previously suspected, and will have important consequences for future management considerations for these stocks. Close

• 43. [Article] Color Perception in Golden Mantled Ground Squirrels

  Squirrels appear to be unique among sub-primate mammals in being able to see at least some colors. A readily available Oregon squirrel species, golden mantled ground squirrels (Citellus lateralis), which ...

  Citation × Citation Citation Abstract Copy Title: Color Perception in Golden Mantled Ground Squirrels Author: Cooley, Robert F. Year: 1973 Squirrels appear to be unique among sub-primate mammals in being able to see at least some colors. A readily available Oregon squirrel species, golden mantled ground squirrels (Citellus lateralis), which has not previously been tested under laboratory conditions for color vision, was subjected to color discrimination testing in a Skinner box. On the basis of recent physiological tests of color reception capacity and behavioral tests of color discrimination response in closely related species, it was predicted that this species should be able to discriminate blue, green and possibly yellow, but not red. Three experiments were conducted. The first, a pilot study, checked for discrimination of blue from green and blue from gray; subjects were rewarded for pressing on one color, shocked for pressing on the other color. The second experiment, the main part of the study, used one subject tor each of three discriminations: green from gray, yellow from gray, and red from gray. Here, a choice approach was employed: two bars were used, with subjects having to choose the correct one tor each stimulus, receiving a food reward for correct choices and no reward for incorrect choices. Third, a series of tests was devised to check for use of cues other than color as a possible basis for discrimination in the main experiment. These squirrels succeeded in discriminating all four colors, and results of the series of cue tests indicate they were not making significant use of non-color cues. Despite past results, therefore, it was concluded that this species is capable of seeing all colors in the visible spectrum. This result should be of interest to evolutionary theorists and may have important implications for current theories of color vision processes. Title: Color Perception in Golden Mantled Ground Squirrels Author: Cooley, Robert F. Year: 1973 Squirrels appear to be unique among sub-primate mammals in being able to see at least some colors. A readily available Oregon squirrel species, golden mantled ground squirrels (Citellus lateralis), which has not previously been tested under laboratory conditions for color vision, was subjected to color discrimination testing in a Skinner box. On the basis of recent physiological tests of color reception capacity and behavioral tests of color discrimination response in closely related species, it was predicted that this species should be able to discriminate blue, green and possibly yellow, but not red. Three experiments were conducted. The first, a pilot study, checked for discrimination of blue from green and blue from gray; subjects were rewarded for pressing on one color, shocked for pressing on the other color. The second experiment, the main part of the study, used one subject tor each of three discriminations: green from gray, yellow from gray, and red from gray. Here, a choice approach was employed: two bars were used, with subjects having to choose the correct one tor each stimulus, receiving a food reward for correct choices and no reward for incorrect choices. Third, a series of tests was devised to check for use of cues other than color as a possible basis for discrimination in the main experiment. These squirrels succeeded in discriminating all four colors, and results of the series of cue tests indicate they were not making significant use of non-color cues. Despite past results, therefore, it was concluded that this species is capable of seeing all colors in the visible spectrum. This result should be of interest to evolutionary theorists and may have important implications for current theories of color vision processes. Close

• 44. [Article] Increased Habitat Connectivity Homogenizes Freshwater Communities: Historical and Landscape Perspectives

  Increases in habitat connectivity can have consequences for taxonomic, functional, and genetic diversity of communities. Previously isolated aquatic habitats were connected with canals and pipelines in ...

  Citation × Citation Citation Abstract Copy Title: Increased Habitat Connectivity Homogenizes Freshwater Communities: Historical and Landscape Perspectives Author: Strecker, Angela L., Brittain, Jeffrey Thomas Year: 2017 Increases in habitat connectivity can have consequences for taxonomic, functional, and genetic diversity of communities. Previously isolated aquatic habitats were connected with canals and pipelines in the largest water development project in the US history, the Columbia Basin Project (CBP; eastern Washington, USA), which also altered environmental conditions; however, the ecological consequences are largely unknown. Using a historical dataset, we examined long-term patterns in zooplankton communities, water chemistry and clarity, testing the hypothesis that increased connectivity will result in taxonomic homogenization. Further, we tested contemporary drivers of communities using a comprehensive set of environmental and landscape variables. Waterbodies were sampled for zooplankton community composition as well as physical and chemical variables inside and outside the CBP using methods consistent with historical studies. We found significant declines in salinity inside the CBP, whereas changes in water clarity were prevalent across all waterbodies. Increased connectivity via canals homogenized zooplankton communities over time, as well as increasing regional richness. Other long-term changes in zooplankton communities may be related to climate change, invasive species, and land-use changes. Synthesis and applications. Though canals may offer species spatial refugia, homogenization may decrease resilience to environmental stressors. These new hybrid aquatic landscapes, or hydroscapes, should be considered carefully in future water development, including specific plans for monitoring of species and environmental conditions, as well as mitigation of undesirable conditions and/or non-native species. Title: Increased Habitat Connectivity Homogenizes Freshwater Communities: Historical and Landscape Perspectives Author: Strecker, Angela L., Brittain, Jeffrey Thomas Year: 2017 Increases in habitat connectivity can have consequences for taxonomic, functional, and genetic diversity of communities. Previously isolated aquatic habitats were connected with canals and pipelines in the largest water development project in the US history, the Columbia Basin Project (CBP; eastern Washington, USA), which also altered environmental conditions; however, the ecological consequences are largely unknown. Using a historical dataset, we examined long-term patterns in zooplankton communities, water chemistry and clarity, testing the hypothesis that increased connectivity will result in taxonomic homogenization. Further, we tested contemporary drivers of communities using a comprehensive set of environmental and landscape variables. Waterbodies were sampled for zooplankton community composition as well as physical and chemical variables inside and outside the CBP using methods consistent with historical studies. We found significant declines in salinity inside the CBP, whereas changes in water clarity were prevalent across all waterbodies. Increased connectivity via canals homogenized zooplankton communities over time, as well as increasing regional richness. Other long-term changes in zooplankton communities may be related to climate change, invasive species, and land-use changes. Synthesis and applications. Though canals may offer species spatial refugia, homogenization may decrease resilience to environmental stressors. These new hybrid aquatic landscapes, or hydroscapes, should be considered carefully in future water development, including specific plans for monitoring of species and environmental conditions, as well as mitigation of undesirable conditions and/or non-native species. Close

• 45. [Article] The McKee Preserve Management Options at Bandon Dunes Golf Resort

  The McKee Preserve is a new conservation area at Bandon Dunes Golf Resort, located on the southern Oregon coast. The Preserve is 250 acres in size and is made up of 13 different natural resource communities. ...

  Citation × Citation Citation Abstract Copy Title: The McKee Preserve Management Options at Bandon Dunes Golf Resort Author: Edwards, Ashley Marie Year: 2009 The McKee Preserve is a new conservation area at Bandon Dunes Golf Resort, located on the southern Oregon coast. The Preserve is 250 acres in size and is made up of 13 different natural resource communities. One important resource is silvery phacelia (Phacelia argentea), which is a state threatened plant species and is a species of concern federally. The goal of this project was to perform plant inventories for silvery phacelia and kinnikinnick that will be used to establish a functional management plan for the Preserve. Other resources of interest to the Preserve have been included in the literature review and management plan. A proposed par 3 golf course has also been included in the analysis and management plan of the report. Using Geographical Information Systems and Global Positioning Systems to conduct the silvery phacelia inventory showed that there are 6,803 individual plants at the Resort and 5,078 plants on the Preserve. A silvery phacelia community was found north of Cut Creek, which has not been listed as a historical site for this species. The species most likely established itself through fill materials that were seed rich, when building the second golf course on the property, Pacific Dunes. The kinnikinnick meadows have been reduced from building and opening Bandon Trails Golf Course. The remaining meadows are 1.4 acres in size. The par 3 golf course, if built, will be located in the northern portion of the Preserve and would share access with Bandon Trails Golf Course. Out of the 11 proposed holes, 9 have been approved so that impacts to the silvery phacelia will be minimized. Title: The McKee Preserve Management Options at Bandon Dunes Golf Resort Author: Edwards, Ashley Marie Year: 2009 The McKee Preserve is a new conservation area at Bandon Dunes Golf Resort, located on the southern Oregon coast. The Preserve is 250 acres in size and is made up of 13 different natural resource communities. One important resource is silvery phacelia (Phacelia argentea), which is a state threatened plant species and is a species of concern federally. The goal of this project was to perform plant inventories for silvery phacelia and kinnikinnick that will be used to establish a functional management plan for the Preserve. Other resources of interest to the Preserve have been included in the literature review and management plan. A proposed par 3 golf course has also been included in the analysis and management plan of the report. Using Geographical Information Systems and Global Positioning Systems to conduct the silvery phacelia inventory showed that there are 6,803 individual plants at the Resort and 5,078 plants on the Preserve. A silvery phacelia community was found north of Cut Creek, which has not been listed as a historical site for this species. The species most likely established itself through fill materials that were seed rich, when building the second golf course on the property, Pacific Dunes. The kinnikinnick meadows have been reduced from building and opening Bandon Trails Golf Course. The remaining meadows are 1.4 acres in size. The par 3 golf course, if built, will be located in the northern portion of the Preserve and would share access with Bandon Trails Golf Course. Out of the 11 proposed holes, 9 have been approved so that impacts to the silvery phacelia will be minimized. Close

• 46. [Article] Mechanisms of Methane Transport Through Trees

  Although the dynamics of methane (CH4) emission from croplands and wetlands have been fairly well investigated, the contribution of trees to global methane emission and the mechanisms of tree transport ...

  Citation × Citation Citation Abstract Copy Title: Mechanisms of Methane Transport Through Trees Author: Kutschera, Ellynne Marie Year: 2013 Although the dynamics of methane (CH4) emission from croplands and wetlands have been fairly well investigated, the contribution of trees to global methane emission and the mechanisms of tree transport are relatively unknown. Methane emissions from the common wetland tree species Populus trichocarpa (black cottonwood) native to the Pacific Northwest were measured under hydroponic conditions in order to separate plant transport mechanisms from the influence of soil processes. Roots were exposed to methane enriched water and canopy emissions of methane were measured using a canopy enclosure. Methane accumulation in the canopy was generally linear and the average canopy methane flux was 3.0 ± 2.6 μg CH4 min-1. Flux magnitudes from stem experiments scaled to the area of the main tree stem are comparable to whole-canopy flux values, indicating that the majority of methane emitted from the tree leaves through the stem. Samples for stable carbon isotope composition were taken during the canopy experiments. Compared to the isotopic composition of root water methane, canopy methane was depleted in 13C on average by 8.6 ± 3.3 permil; this indicates that methane moving through the tree is not following a purely bulk flow pathway (where no depletion would occur), but is instead subject to at least one fractionating mechanism. When temperature was varied, the flux at the coolest temperature was significantly different from the higher flux at the warmest temperature (p-value less than 0.02). The calculated Q10 for methane flux was 2.4, which indicates a positive feedback with temperature increase. Analysis of δ13C values of emitted CH4 in the temperature experiments shows increasing depletion with cooler temperatures and lower flux. This indicates that not only does the magnitude of flux vary with temperature, but the actual dominant transport mechanism changes as well. Title: Mechanisms of Methane Transport Through Trees Author: Kutschera, Ellynne Marie Year: 2013 Although the dynamics of methane (CH4) emission from croplands and wetlands have been fairly well investigated, the contribution of trees to global methane emission and the mechanisms of tree transport are relatively unknown. Methane emissions from the common wetland tree species Populus trichocarpa (black cottonwood) native to the Pacific Northwest were measured under hydroponic conditions in order to separate plant transport mechanisms from the influence of soil processes. Roots were exposed to methane enriched water and canopy emissions of methane were measured using a canopy enclosure. Methane accumulation in the canopy was generally linear and the average canopy methane flux was 3.0 ± 2.6 μg CH4 min-1. Flux magnitudes from stem experiments scaled to the area of the main tree stem are comparable to whole-canopy flux values, indicating that the majority of methane emitted from the tree leaves through the stem. Samples for stable carbon isotope composition were taken during the canopy experiments. Compared to the isotopic composition of root water methane, canopy methane was depleted in 13C on average by 8.6 ± 3.3 permil; this indicates that methane moving through the tree is not following a purely bulk flow pathway (where no depletion would occur), but is instead subject to at least one fractionating mechanism. When temperature was varied, the flux at the coolest temperature was significantly different from the higher flux at the warmest temperature (p-value less than 0.02). The calculated Q10 for methane flux was 2.4, which indicates a positive feedback with temperature increase. Analysis of δ13C values of emitted CH4 in the temperature experiments shows increasing depletion with cooler temperatures and lower flux. This indicates that not only does the magnitude of flux vary with temperature, but the actual dominant transport mechanism changes as well. Close

• 47. [Article] Antisense transcription is pervasive but rarely conserved in enteric bacteria

  Noncoding RNAs, including antisense RNAs (asRNAs) that originate from the complementary strand of protein-coding genes, are involved in the regulation of gene expression in all domains of life. Recent ...

  Citation × Citation Citation Abstract Copy Title: Antisense transcription is pervasive but rarely conserved in enteric bacteria Author: Raghavan, Rahul, Sloan, D. B., Ochman, H. Year: 2012 Noncoding RNAs, including antisense RNAs (asRNAs) that originate from the complementary strand of protein-coding genes, are involved in the regulation of gene expression in all domains of life. Recent application of deep-sequencing technologies has revealed that the transcription of asRNAs occurs genome-wide in bacteria. Although the role of the vast majority of asRNAs remains unknown, it is often assumed that their presence implies important regulatory functions, similar to those of other noncoding RNAs. Alternatively, many antisense transcripts may be produced by chance transcription events from promoter-like sequences that result from the degenerate nature of bacterial transcription factor binding sites. To investigate the biological relevance of antisense transcripts, we compared genome-wide patterns of asRNA expression in closely related enteric bacteria, Escherichia coli and Salmonella enterica serovar Typhimurium, by performing strand-specific transcriptome sequencing. Although antisense transcripts are abundant in both species, less than 3% of asRNAs are expressed at high levels in both species, and only about 14% appear to be conserved among species. And unlike the promoters of protein-coding genes, asRNA promoters show no evidence of sequence conservation between, or even within, species. Our findings suggest that many or even most bacterial asRNAs are nonadaptive by-products of the cell's transcription machinery. IMPORTANCE Application of high-throughput methods has revealed the expression throughout bacterial genomes of transcripts encoded on the strand complementary to protein-coding genes. Because transcription is costly, it is usually assumed that these transcripts, termed antisense RNAs (asRNAs), serve some function; however, the role of most asRNAs is unclear, raising questions about their relevance in cellular processes. Because natural selection conserves functional elements, comparisons between related species provide a method for assessing functionality genome-wide. Applying such an approach, we assayed all transcripts in two closely related bacteria, Escherichia coli and Salmonella enterica serovar Typhimurium, and demonstrate that, although the levels of genome-wide antisense transcription are similarly high in both bacteria, only a small fraction of asRNAs are shared across species. Moreover, the promoters associated with asRNAs show no evidence of sequence conservation between, or even within, species. These findings indicate that despite the genome-wide transcription of asRNAs, many of these transcripts are likely nonfunctional. Title: Antisense transcription is pervasive but rarely conserved in enteric bacteria Author: Raghavan, Rahul, Sloan, D. B., Ochman, H. Year: 2012 Noncoding RNAs, including antisense RNAs (asRNAs) that originate from the complementary strand of protein-coding genes, are involved in the regulation of gene expression in all domains of life. Recent application of deep-sequencing technologies has revealed that the transcription of asRNAs occurs genome-wide in bacteria. Although the role of the vast majority of asRNAs remains unknown, it is often assumed that their presence implies important regulatory functions, similar to those of other noncoding RNAs. Alternatively, many antisense transcripts may be produced by chance transcription events from promoter-like sequences that result from the degenerate nature of bacterial transcription factor binding sites. To investigate the biological relevance of antisense transcripts, we compared genome-wide patterns of asRNA expression in closely related enteric bacteria, Escherichia coli and Salmonella enterica serovar Typhimurium, by performing strand-specific transcriptome sequencing. Although antisense transcripts are abundant in both species, less than 3% of asRNAs are expressed at high levels in both species, and only about 14% appear to be conserved among species. And unlike the promoters of protein-coding genes, asRNA promoters show no evidence of sequence conservation between, or even within, species. Our findings suggest that many or even most bacterial asRNAs are nonadaptive by-products of the cell's transcription machinery. IMPORTANCE Application of high-throughput methods has revealed the expression throughout bacterial genomes of transcripts encoded on the strand complementary to protein-coding genes. Because transcription is costly, it is usually assumed that these transcripts, termed antisense RNAs (asRNAs), serve some function; however, the role of most asRNAs is unclear, raising questions about their relevance in cellular processes. Because natural selection conserves functional elements, comparisons between related species provide a method for assessing functionality genome-wide. Applying such an approach, we assayed all transcripts in two closely related bacteria, Escherichia coli and Salmonella enterica serovar Typhimurium, and demonstrate that, although the levels of genome-wide antisense transcription are similarly high in both bacteria, only a small fraction of asRNAs are shared across species. Moreover, the promoters associated with asRNAs show no evidence of sequence conservation between, or even within, species. These findings indicate that despite the genome-wide transcription of asRNAs, many of these transcripts are likely nonfunctional. Close

• 48. [Article] Riparian Wetland Plant Response to Livestock Exclusion in the Lower Columbia River Basin

  The purpose of this study was to examine the characteristics of riparian plant communities along a gradient of livestock exclusion in the Lower Columbia River Basin (LCRB) located in the Pacific Northwest ...

  Citation × Citation Citation Abstract Copy Title: Riparian Wetland Plant Response to Livestock Exclusion in the Lower Columbia River Basin Author: Kidd, S. A., Yeakley, J. Alan Year: 2015 The purpose of this study was to examine the characteristics of riparian plant communities along a gradient of livestock exclusion in the Lower Columbia River Basin (LCRB) located in the Pacific Northwest region of the United States. Livestock exclusion from riparian wetlands is a common passive restoration technique. Few studies, however, have focused on the effects of livestock grazing or the exclusion of livestock grazing on these ecosystems. Vegetation community composition was examined in two passive restoration sites, three and 13 years since livestock exclusion, and in a reference site with continued livestock grazing. We hypothesized native plant species richness would be lower in the excluded wetlands than in the grazed wetland due to the competitive exclusion from an increase in non-native plant dominance in the absence of grazing. The grazed wetland had significantly (P < 0.02) greater mean total species richness (23.3 ± 1.6; mean ± 1 standard error), native (10.2 ± 0.5), and non-native (12 ± 1.5) species richness than both the excluded wetlands. Mean total species richness did not differ significantly (P = 0.088) between the three-year (12 ± 1.4) and 13-year (5.5 ± 2.3) excluded wetlands. Mean native and non-native species richness also did not differ significantly (native P = 0.088. non-native P = 0.064) between the three-year (native 6.3 ± 0.6, non-native 5 ± 2.3) and 13-year (native 2.8 ± 1.3, non-native 2.7 ± 1.1) excluded wetlands. However, native species abundance as indicated by percent cover was significantly (P < 0.02) lower in the 13-year excluded wetland (4.2 ± 2.0%) than both the three-year excluded (51.5 ± 3.9%) and grazed (23.2 ± 3.3%) wetlands. The invasive grass, Phalaris arundinacea (reed canarygrass), was found to be the dominant vegetation cover in all three wetlands, with average relative cover ranging from 95.2 ± 2.0% at the 13-year exclusion site to 52.8 ± 4.1% at the grazing site, and 43.0 ± 4.0% cover at the three-year exclusion site. These observations suggest that livestock exclusion alone may be an ineffective strategy for restoring riparian plant communities in regions such as LCRB where invasive species like reed canarygrass are abundant. More effective management alternatives might include short-term livestock exclusion and reintroduced targeted grazing to both reduce livestock impacts and control reed canarygrass dominance. Title: Riparian Wetland Plant Response to Livestock Exclusion in the Lower Columbia River Basin Author: Kidd, S. A., Yeakley, J. Alan Year: 2015 The purpose of this study was to examine the characteristics of riparian plant communities along a gradient of livestock exclusion in the Lower Columbia River Basin (LCRB) located in the Pacific Northwest region of the United States. Livestock exclusion from riparian wetlands is a common passive restoration technique. Few studies, however, have focused on the effects of livestock grazing or the exclusion of livestock grazing on these ecosystems. Vegetation community composition was examined in two passive restoration sites, three and 13 years since livestock exclusion, and in a reference site with continued livestock grazing. We hypothesized native plant species richness would be lower in the excluded wetlands than in the grazed wetland due to the competitive exclusion from an increase in non-native plant dominance in the absence of grazing. The grazed wetland had significantly (P < 0.02) greater mean total species richness (23.3 ± 1.6; mean ± 1 standard error), native (10.2 ± 0.5), and non-native (12 ± 1.5) species richness than both the excluded wetlands. Mean total species richness did not differ significantly (P = 0.088) between the three-year (12 ± 1.4) and 13-year (5.5 ± 2.3) excluded wetlands. Mean native and non-native species richness also did not differ significantly (native P = 0.088. non-native P = 0.064) between the three-year (native 6.3 ± 0.6, non-native 5 ± 2.3) and 13-year (native 2.8 ± 1.3, non-native 2.7 ± 1.1) excluded wetlands. However, native species abundance as indicated by percent cover was significantly (P < 0.02) lower in the 13-year excluded wetland (4.2 ± 2.0%) than both the three-year excluded (51.5 ± 3.9%) and grazed (23.2 ± 3.3%) wetlands. The invasive grass, Phalaris arundinacea (reed canarygrass), was found to be the dominant vegetation cover in all three wetlands, with average relative cover ranging from 95.2 ± 2.0% at the 13-year exclusion site to 52.8 ± 4.1% at the grazing site, and 43.0 ± 4.0% cover at the three-year exclusion site. These observations suggest that livestock exclusion alone may be an ineffective strategy for restoring riparian plant communities in regions such as LCRB where invasive species like reed canarygrass are abundant. More effective management alternatives might include short-term livestock exclusion and reintroduced targeted grazing to both reduce livestock impacts and control reed canarygrass dominance. Close

• 49. [Article] Empirical Evidence for the Scale Dependence of Biotic Interactions

  Aim: Although it is recognized that ecological patterns are scale dependent, the exact scales over which specific ecological processes operate are still a matter of controversy. In particular, understanding ...

  Citation × Citation Citation Abstract Copy Title: Empirical Evidence for the Scale Dependence of Biotic Interactions Author: Belmaker, Jonathan, Zarnetske, Phoebe, Zonneveld, Sara, Record, Sydne, Strecker, Angela L., Beaudrot, Lydia Year: 2015 Aim: Although it is recognized that ecological patterns are scale dependent, the exact scales over which specific ecological processes operate are still a matter of controversy. In particular, understanding the scales over which biotic interactions operate is critical for predicting changes in species distributions in the face of the ongoing biodiversity crisis. It has been hypothesized that biotic interactions operate predominately at fine grains, yet this conjecture has received relatively little empirical scrutiny. We use US woodpeckers as a model system to assess the relative importance of biotic interactions, environmental suitability and geographic proximity to other intraspecific occurrence sites, across scales. Methods: We combined species occurrence data from the North American Breeding Bird Survey (BBS) with a large pair-wise interaction matrix describing known interactions among woodpeckers and other bird species. Using a logistic mixed modelling framework we then established the relative importance of biotic interactions as predictors of woodpecker occurrences in relation to environment and geographic proximity to intraspecific occurrence sites. Results: We found that geographic proximity becomes a stronger predictor of woodpecker occurrence as grain becomes coarser, while environment is grain-invariant. As opposed to environment and geographic proximity, we found that when the focal species experienced positive biotic interactions, the importance of interactions decreased with increased grain. However, positive interactions remained important up to a grain size of entire BBS routes (c. 40 km), which is much coarser than the grain size used by most species distribution models. In contrast, when the focal species experienced negative interactions we did not find clear grain dependence. Main conclusions: Biotic interactions (both positive and negative) are important predictors of species occurrences. While these interactions are strongest at fine grains, they can remain important even at coarse grains, and are thus critical for predicting distributional changes in the face of the ongoing biodiversity crisis. Title: Empirical Evidence for the Scale Dependence of Biotic Interactions Author: Belmaker, Jonathan, Zarnetske, Phoebe, Zonneveld, Sara, Record, Sydne, Strecker, Angela L., Beaudrot, Lydia Year: 2015 Aim: Although it is recognized that ecological patterns are scale dependent, the exact scales over which specific ecological processes operate are still a matter of controversy. In particular, understanding the scales over which biotic interactions operate is critical for predicting changes in species distributions in the face of the ongoing biodiversity crisis. It has been hypothesized that biotic interactions operate predominately at fine grains, yet this conjecture has received relatively little empirical scrutiny. We use US woodpeckers as a model system to assess the relative importance of biotic interactions, environmental suitability and geographic proximity to other intraspecific occurrence sites, across scales. Methods: We combined species occurrence data from the North American Breeding Bird Survey (BBS) with a large pair-wise interaction matrix describing known interactions among woodpeckers and other bird species. Using a logistic mixed modelling framework we then established the relative importance of biotic interactions as predictors of woodpecker occurrences in relation to environment and geographic proximity to intraspecific occurrence sites. Results: We found that geographic proximity becomes a stronger predictor of woodpecker occurrence as grain becomes coarser, while environment is grain-invariant. As opposed to environment and geographic proximity, we found that when the focal species experienced positive biotic interactions, the importance of interactions decreased with increased grain. However, positive interactions remained important up to a grain size of entire BBS routes (c. 40 km), which is much coarser than the grain size used by most species distribution models. In contrast, when the focal species experienced negative interactions we did not find clear grain dependence. Main conclusions: Biotic interactions (both positive and negative) are important predictors of species occurrences. While these interactions are strongest at fine grains, they can remain important even at coarse grains, and are thus critical for predicting distributional changes in the face of the ongoing biodiversity crisis. Close

• 50. [Article] Mutual exclusion between Salmonberry and Douglas-fir in the Coast Range of Oregon

  One serious problem faced by the forest industry in the Pacific Northwest is poor regeneration of commercial trees on land which is harvested and subsequently dominated by brush species. In Coastal Oregon, ...

  Citation × Citation Citation Abstract Copy Title: Mutual exclusion between Salmonberry and Douglas-fir in the Coast Range of Oregon Author: Still, Kenneth Ray Year: 1972 One serious problem faced by the forest industry in the Pacific Northwest is poor regeneration of commercial trees on land which is harvested and subsequently dominated by brush species. In Coastal Oregon, salmonberry is one of these brush species. Detailed investigations of field sites indicate that light intensity in the brush stands was low but sufficient for germination and early growth of Douglas-fir seedlings and soil moisture percentages and nutrient levels were high enough to support early Douglas-fir growth. Laboratory tests demonstrated the presence of leachable phytotoxins in the leaves of salmonberry. The hypothesis resulting from this study is that salmonberry releases a phytotoxin that in synergism with environmental stresses (i.e., light), suppresses germination and growth of Douglas-fir seedlings in the field. Title: Mutual exclusion between Salmonberry and Douglas-fir in the Coast Range of Oregon Author: Still, Kenneth Ray Year: 1972 One serious problem faced by the forest industry in the Pacific Northwest is poor regeneration of commercial trees on land which is harvested and subsequently dominated by brush species. In Coastal Oregon, salmonberry is one of these brush species. Detailed investigations of field sites indicate that light intensity in the brush stands was low but sufficient for germination and early growth of Douglas-fir seedlings and soil moisture percentages and nutrient levels were high enough to support early Douglas-fir growth. Laboratory tests demonstrated the presence of leachable phytotoxins in the leaves of salmonberry. The hypothesis resulting from this study is that salmonberry releases a phytotoxin that in synergism with environmental stresses (i.e., light), suppresses germination and growth of Douglas-fir seedlings in the field. Close

• 51. [Article] Effects of Antibiotic Mixtures across Marine Intertidal Trophic Levels: Examining Environmentally-Relevant Contaminant Concentrations

  Approximately 48% of Americans use prescription drugs within each 30-day period, and there are signs this trend is increasing. Although many studies track pharmaceuticals’ fates in contaminating waterways, ...

  Citation × Citation Citation Abstract Copy Title: Effects of Antibiotic Mixtures across Marine Intertidal Trophic Levels: Examining Environmentally-Relevant Contaminant Concentrations Author: Teixeira, Jaclyn Rebecca Year: 2016 Approximately 48% of Americans use prescription drugs within each 30-day period, and there are signs this trend is increasing. Although many studies track pharmaceuticals’ fates in contaminating waterways, only fairly recent efforts have examined the potential impacts of these drugs on non-target organisms. The antibiotics sulfamethoxazole and trimethoprim, often prescribed together to treat bacterial infections, have been detected worldwide in marine and estuarine environments at concentrations up to 700-800 ng/L each. Toxic effects of these drugs have been identified in freshwater organisms, with synergistic effects observed in short-term studies of mixtures of the two; however, little research has examined possible sub-lethal and longer-term effects of antibiotics in environmentally-relevant mixture concentrations on marine organisms. I examined the long-term effects of mixtures of these two antibiotics in species of a marine system: marine microalgal species, and marine mussels, to determine whether the levels currently present in waterways affect organism health and reproduction. Microalgal species may be among the most sensitive organisms to pharmaceutical contaminants based on ecotoxicity research. I exposed three species of marine microalgae (Isochrysis galbana, Chaetoceros neogracile, and Nannochloropsis oculata) to environmentally-relevant mixtures of sulfamethoxazole and trimethoprim and examined their three-week growth rates. I found that for each species, the antibiotic treatments significantly suppressed algal growth. Specifically, I found that sulfamethoxazole was a driving factor in suppression of C. neogracile and I. galbana growth, while N. oculata responded more sensitively to a broader range of treatment mixture levels, which also included trimethoprim-only treatment groups and mixtures. These results on marine microalgae address critical data gaps, and identify the impacts of pharmaceuticals on marine primary producers, which could have direct ecosystem implications to higher trophic levels. Antibiotic pharmaceuticals can also affect marine mussel health, based on previous study of sub-cellular endpoints. I hypothesized that the important benthic foundational species, the Mytilus californianus mussel, would be significantly impacted by long-term 12-week exposure to environmentally-relevant concentrations and mixtures of sulfamethoxazole and trimethoprim. Specifically, I measured growth rate, feeding rate, condition index, and gonando-somatic index as indicators of whole-organism and reproductive health. Sulfamethoxazole concentrations, in particular, and trimethoprim to a lesser extent, suppressed mussel growth and significantly affected condition index and gonandosomatic index over time. The results of this study offer an understanding of how an intertidal system responds to chronic presence of antibiotic mixtures in the water, and a more complete picture of the environmental consequences of pharmaceutical contaminants released into marine ecosystems at ever-growing rates. Title: Effects of Antibiotic Mixtures across Marine Intertidal Trophic Levels: Examining Environmentally-Relevant Contaminant Concentrations Author: Teixeira, Jaclyn Rebecca Year: 2016 Approximately 48% of Americans use prescription drugs within each 30-day period, and there are signs this trend is increasing. Although many studies track pharmaceuticals’ fates in contaminating waterways, only fairly recent efforts have examined the potential impacts of these drugs on non-target organisms. The antibiotics sulfamethoxazole and trimethoprim, often prescribed together to treat bacterial infections, have been detected worldwide in marine and estuarine environments at concentrations up to 700-800 ng/L each. Toxic effects of these drugs have been identified in freshwater organisms, with synergistic effects observed in short-term studies of mixtures of the two; however, little research has examined possible sub-lethal and longer-term effects of antibiotics in environmentally-relevant mixture concentrations on marine organisms. I examined the long-term effects of mixtures of these two antibiotics in species of a marine system: marine microalgal species, and marine mussels, to determine whether the levels currently present in waterways affect organism health and reproduction. Microalgal species may be among the most sensitive organisms to pharmaceutical contaminants based on ecotoxicity research. I exposed three species of marine microalgae (Isochrysis galbana, Chaetoceros neogracile, and Nannochloropsis oculata) to environmentally-relevant mixtures of sulfamethoxazole and trimethoprim and examined their three-week growth rates. I found that for each species, the antibiotic treatments significantly suppressed algal growth. Specifically, I found that sulfamethoxazole was a driving factor in suppression of C. neogracile and I. galbana growth, while N. oculata responded more sensitively to a broader range of treatment mixture levels, which also included trimethoprim-only treatment groups and mixtures. These results on marine microalgae address critical data gaps, and identify the impacts of pharmaceuticals on marine primary producers, which could have direct ecosystem implications to higher trophic levels. Antibiotic pharmaceuticals can also affect marine mussel health, based on previous study of sub-cellular endpoints. I hypothesized that the important benthic foundational species, the Mytilus californianus mussel, would be significantly impacted by long-term 12-week exposure to environmentally-relevant concentrations and mixtures of sulfamethoxazole and trimethoprim. Specifically, I measured growth rate, feeding rate, condition index, and gonando-somatic index as indicators of whole-organism and reproductive health. Sulfamethoxazole concentrations, in particular, and trimethoprim to a lesser extent, suppressed mussel growth and significantly affected condition index and gonandosomatic index over time. The results of this study offer an understanding of how an intertidal system responds to chronic presence of antibiotic mixtures in the water, and a more complete picture of the environmental consequences of pharmaceutical contaminants released into marine ecosystems at ever-growing rates. Close

• 52. [Article] Vegetation, Environmental Characteristics, and their Relationships: Variation within the Annually Flooded Riparian Zones of the John Day River Basin, Oregon

  I hypothesized that vegetation and physical environmental characteristics would differ between the upper and lower extents of the annually flooded riparian zone on the John Day River, and that relationships ...

  Citation × Citation Citation Abstract Copy Title: Vegetation, Environmental Characteristics, and their Relationships: Variation within the Annually Flooded Riparian Zones of the John Day River Basin, Oregon Author: Hartsfield, Samuel J. Year: 2009 I hypothesized that vegetation and physical environmental characteristics would differ between the upper and lower extents of the annually flooded riparian zone on the John Day River, and that relationships between species and environmental variables would display differences between these two zones. Vegetation, environmental variables, and relationships between them were assessed for the entire annually flooded riparian zone, and for the proposed upper and lower zones. Data were collected from 60 one-square-meter quadrats: 30 in each the upper and lower zones. Sites were randomly selected and located so that flood duration was roughly equal at all sites within each zone. 34 plant species were encountered: 25 in the upper zone, 27 in the lower zone. Wetland obligate and facultative wetland species groups and eight individual species accounted for statistically different percentages ofquadrat cover between zones. ANOSIM analysis identified two statistically distinct vegetation communities between the two zones. Soil texture averaged 75.85% sand and 20.81% fines. Sand ranged between 36.69% and 95.55%. Fines ranged between 2.54% and 58.84%. A horizon depths and fine soil particle concentrations were greater in the upper zone. Coarser soils with more sand and gravel dominated the lower zone. All enviromnental variables studied, except pH, were highly variable throughout the study area. ANOSIM analysis results suggest that the upper and lower zones have distinct, statistically different physical environments from each other. Regression analyses relating species quadrat cover to physical environmental variables were performed for the total, upper, and lower riparian zones. Numerous differences were identified between the upper and lower riparian zones that the riparian scale analyses did not represent accurately. There were ten instances in which the zone scale analyses identified a relationship in either the upper or lower zone, while the corresponding riparian scale analysis failed to identify any relationship. The results of this study indicate that vegetation and the physical environment are statistically different between the upper and lower zones on this river, and that relationships between a given plant species and environmental variable can vary between zones. Future research and management efforts should consider and address the potential for such between-zone variation. Title: Vegetation, Environmental Characteristics, and their Relationships: Variation within the Annually Flooded Riparian Zones of the John Day River Basin, Oregon Author: Hartsfield, Samuel J. Year: 2009 I hypothesized that vegetation and physical environmental characteristics would differ between the upper and lower extents of the annually flooded riparian zone on the John Day River, and that relationships between species and environmental variables would display differences between these two zones. Vegetation, environmental variables, and relationships between them were assessed for the entire annually flooded riparian zone, and for the proposed upper and lower zones. Data were collected from 60 one-square-meter quadrats: 30 in each the upper and lower zones. Sites were randomly selected and located so that flood duration was roughly equal at all sites within each zone. 34 plant species were encountered: 25 in the upper zone, 27 in the lower zone. Wetland obligate and facultative wetland species groups and eight individual species accounted for statistically different percentages ofquadrat cover between zones. ANOSIM analysis identified two statistically distinct vegetation communities between the two zones. Soil texture averaged 75.85% sand and 20.81% fines. Sand ranged between 36.69% and 95.55%. Fines ranged between 2.54% and 58.84%. A horizon depths and fine soil particle concentrations were greater in the upper zone. Coarser soils with more sand and gravel dominated the lower zone. All enviromnental variables studied, except pH, were highly variable throughout the study area. ANOSIM analysis results suggest that the upper and lower zones have distinct, statistically different physical environments from each other. Regression analyses relating species quadrat cover to physical environmental variables were performed for the total, upper, and lower riparian zones. Numerous differences were identified between the upper and lower riparian zones that the riparian scale analyses did not represent accurately. There were ten instances in which the zone scale analyses identified a relationship in either the upper or lower zone, while the corresponding riparian scale analysis failed to identify any relationship. The results of this study indicate that vegetation and the physical environment are statistically different between the upper and lower zones on this river, and that relationships between a given plant species and environmental variable can vary between zones. Future research and management efforts should consider and address the potential for such between-zone variation. Close

• 53. [Article] The Biology of Eastern Kingbirds at Malheur National Wildlife Refuge: Survival, Reproduction, and Testosterone Secretion

  This dissertation presents the results of a study that I undertook to better understand the breeding biology of Eastern Kingbirds (hereafter, kingbirds) at Malheur National Wildlife Refuge in southeastern ...

  Citation × Citation Citation Abstract Copy Title: The Biology of Eastern Kingbirds at Malheur National Wildlife Refuge: Survival, Reproduction, and Testosterone Secretion Author: Redmond, Lucas J. Year: 2015 This dissertation presents the results of a study that I undertook to better understand the breeding biology of Eastern Kingbirds (hereafter, kingbirds) at Malheur National Wildlife Refuge in southeastern Oregon from 2003 to 2009. Kingbirds are long-distance migratory songbirds that breed across much of North America. This species is socially monogamous but, via frequent extra-pair copulations, is genetically polygamous. Kingbirds exhibit relatively high breeding site fidelity, often returning to the same tree to nest in subsequent years. Both members of a pair provide parental care, but there are often specific duties performed by both male and female kingbirds. For example, males typically perform much of the vigilant nest defense that this species is well known for and contribute, to an extent, to the feeding of nestlings. Females, on the other hand, are entirely responsible for incubating and brooding. Beginning in 2002, most adults within the population of kingbirds at Malheur had been banded with a unique combination of three colored plastic leg bands and an aluminum USFWS band. Also, as many nests were located in each year as possible, and any young that survived to fledging age were banded with a unique combination of leg bands. Considerable effort was then spent each year to locate as many banded individuals as possible, which allowed me to document adult and juvenile survival. Annual survival rates of adult male and female kingbirds in the population at Malheur did not differ and were relatively high at approximately 0.65. Juvenile survival rate was approximately 0.29, indicating that slightly less than one-third of nestlings survive the interval between fledging and their first potential breeding season. Resighting probability was high for both sexes, although higher for adult males (0.94) than for adult female (0.84). The latter finding is consistent with the higher site fidelity of males than of females. Resighting probabilities for juveniles were much lower at 0.68 and 0.40 for males and females, respectively. Again, this was expected because natal site fidelity is typically much lower than breeding site fidelity. Compared to most other reports, resighting probability and return rates of juvenile kingbirds was high, presumably because the riparian habitats where kingbirds breed at Malheur function as an ecological island surrounded by, for kingbirds, unsuitable high desert habitat. Thus, unless they disperse very long distances, the only option for juvenile kingbirds is to begin nesting on the refuge. The collection of blood samples from birds has become an increasingly common practice in ornithology. The data that can be gained from these samples allow a number of interesting questions to be asked such as understanding the genetic mating system of a species, patterns of hormone secretion, and discerning migratory pathways via stable isotope analysis. The volume of blood collected is usually small and was assumed to cause no long-term negative effects on sampled individuals. However, few studies have rigorously examined the effect of blood sampling on survival. I used a multistate mark-recapture analysis to assess the effect blood sampling on annual survival of kingbirds by combining the annual survival data described above with whether or not individuals were subjected to blood sample collection. The results of this analysis indicated that blood sampling had no effect on annual survival rates of kingbirds. Whether or not this is the case for other species remains to be seen. However, my results support the assumption that when done correctly, blood sampling has little to no long-term negative effects on birds. Comparative analyses of many bird species show that testosterone secretion exhibits fairly predictable patterns among breeding birds of different mating systems. Monogamous species reach a peak during mate attraction and the period of female fertility which is then followed by a sharp decline when young are in the nest. By contrast, males of polygynous species tend to maintain higher levels of testosterone throughout the breeding season to, presumably, maximize opportunities for acquiring additional mates. Kingbirds are socially monogamous but cryptically polygamous. However, because of high rates of extra-pair paternity, variation in reproductive success among males is much higher than what is expected for a monogamous species, and, instead, is similar to what has been reported for polygynous species. Therefore from 2005 to 2009 I measured testosterone concentrations from the blood samples collected from male kingbirds to determine the breeding season profile of testosterone secretion in kingbirds and to understand the factors that influence testosterone variation among individuals. Contrary to expected for a monogamous species, the testosterone profile of kingbirds did not exhibit the brief peak in testosterone followed by a precipitous decline. Testosterone peaked early in the season, but declined very slowly as the nest cycle progressed. I attributed this gradual decline in testosterone to the cryptically polygynous nature of the kingbird extra-pair mating system. I also found substantial variation in testosterone concentration among male kingbirds and was able to identify several factors contributing to this variation. As expected, testosterone declined as the breeding season progressed (independent of stage in nest cycle) and nest density increased, while increases in testosterone were correlated with the number of fertile females within the population. This suggests that male kingbirds were capable of modulating testosterone concentrations to both cope with an increase in conspecific density, but also to ready themselves for times when extra-pair copulations were more likely. Title: The Biology of Eastern Kingbirds at Malheur National Wildlife Refuge: Survival, Reproduction, and Testosterone Secretion Author: Redmond, Lucas J. Year: 2015 This dissertation presents the results of a study that I undertook to better understand the breeding biology of Eastern Kingbirds (hereafter, kingbirds) at Malheur National Wildlife Refuge in southeastern Oregon from 2003 to 2009. Kingbirds are long-distance migratory songbirds that breed across much of North America. This species is socially monogamous but, via frequent extra-pair copulations, is genetically polygamous. Kingbirds exhibit relatively high breeding site fidelity, often returning to the same tree to nest in subsequent years. Both members of a pair provide parental care, but there are often specific duties performed by both male and female kingbirds. For example, males typically perform much of the vigilant nest defense that this species is well known for and contribute, to an extent, to the feeding of nestlings. Females, on the other hand, are entirely responsible for incubating and brooding. Beginning in 2002, most adults within the population of kingbirds at Malheur had been banded with a unique combination of three colored plastic leg bands and an aluminum USFWS band. Also, as many nests were located in each year as possible, and any young that survived to fledging age were banded with a unique combination of leg bands. Considerable effort was then spent each year to locate as many banded individuals as possible, which allowed me to document adult and juvenile survival. Annual survival rates of adult male and female kingbirds in the population at Malheur did not differ and were relatively high at approximately 0.65. Juvenile survival rate was approximately 0.29, indicating that slightly less than one-third of nestlings survive the interval between fledging and their first potential breeding season. Resighting probability was high for both sexes, although higher for adult males (0.94) than for adult female (0.84). The latter finding is consistent with the higher site fidelity of males than of females. Resighting probabilities for juveniles were much lower at 0.68 and 0.40 for males and females, respectively. Again, this was expected because natal site fidelity is typically much lower than breeding site fidelity. Compared to most other reports, resighting probability and return rates of juvenile kingbirds was high, presumably because the riparian habitats where kingbirds breed at Malheur function as an ecological island surrounded by, for kingbirds, unsuitable high desert habitat. Thus, unless they disperse very long distances, the only option for juvenile kingbirds is to begin nesting on the refuge. The collection of blood samples from birds has become an increasingly common practice in ornithology. The data that can be gained from these samples allow a number of interesting questions to be asked such as understanding the genetic mating system of a species, patterns of hormone secretion, and discerning migratory pathways via stable isotope analysis. The volume of blood collected is usually small and was assumed to cause no long-term negative effects on sampled individuals. However, few studies have rigorously examined the effect of blood sampling on survival. I used a multistate mark-recapture analysis to assess the effect blood sampling on annual survival of kingbirds by combining the annual survival data described above with whether or not individuals were subjected to blood sample collection. The results of this analysis indicated that blood sampling had no effect on annual survival rates of kingbirds. Whether or not this is the case for other species remains to be seen. However, my results support the assumption that when done correctly, blood sampling has little to no long-term negative effects on birds. Comparative analyses of many bird species show that testosterone secretion exhibits fairly predictable patterns among breeding birds of different mating systems. Monogamous species reach a peak during mate attraction and the period of female fertility which is then followed by a sharp decline when young are in the nest. By contrast, males of polygynous species tend to maintain higher levels of testosterone throughout the breeding season to, presumably, maximize opportunities for acquiring additional mates. Kingbirds are socially monogamous but cryptically polygamous. However, because of high rates of extra-pair paternity, variation in reproductive success among males is much higher than what is expected for a monogamous species, and, instead, is similar to what has been reported for polygynous species. Therefore from 2005 to 2009 I measured testosterone concentrations from the blood samples collected from male kingbirds to determine the breeding season profile of testosterone secretion in kingbirds and to understand the factors that influence testosterone variation among individuals. Contrary to expected for a monogamous species, the testosterone profile of kingbirds did not exhibit the brief peak in testosterone followed by a precipitous decline. Testosterone peaked early in the season, but declined very slowly as the nest cycle progressed. I attributed this gradual decline in testosterone to the cryptically polygynous nature of the kingbird extra-pair mating system. I also found substantial variation in testosterone concentration among male kingbirds and was able to identify several factors contributing to this variation. As expected, testosterone declined as the breeding season progressed (independent of stage in nest cycle) and nest density increased, while increases in testosterone were correlated with the number of fertile females within the population. This suggests that male kingbirds were capable of modulating testosterone concentrations to both cope with an increase in conspecific density, but also to ready themselves for times when extra-pair copulations were more likely. Close

• 54. [Article] Dendrochronology and Middle Miocene Petrified Oak: Modern Counterparts and Interpretation

  This study reports the first successful statistical crossdating among many ring width time series from petrified wood, thus providing a replicable continuous annual resolution window into tree growth and ...

  Citation × Citation Citation Abstract Copy Title: Dendrochronology and Middle Miocene Petrified Oak: Modern Counterparts and Interpretation Author: Wright, William E., Streck, Martin J., Baisan, Christopher, Wright, W. Walton, Szejner, Paul Year: 2015 This study reports the first successful statistical crossdating among many ring width time series from petrified wood, thus providing a replicable continuous annual resolution window into tree growth and environmental influences during the middle Miocene. The petrified samples, of the genus Quercus, originated at the Stinking Water (SW) locality in Oregon, a Miocene-aged exposure associated with the Columbia River Basalts. 40AR/39AR dating on pillow basalt from the locality yielded a weighted Plateau Age of 13.79 ±0.09 Ma placing the death of the trees at the end of the Langhian Stage of the Middle Miocene (15.97±0.05 to 13.65±0.05 Ma), during the middle Miocene Climate Transition (MMCT). Ring width time series from 26 radii, 17 different trees, show significant intercorrelation. A Modified Coexistence Approach was applied to determine the likely climate range when the SW trees were growing. The modified approach included regression of site-mean ring width time series statistic values on estimated soil moisture for the site locations, using site-mean data from 126 modern Quercus sites from across the United States. Identification of highly significant linearities indicated strong relationships between ring width intercorrelation and soil moisture and ring width variability and soil moisture. Comparison of individual modern site-mean statistical values with values calculated for the SW locality suggests a mesic growing environment for the SW Quercus, with moderate temperatures. Geographic placement of modern Quercus sites with site-mean statistics similar to the SW values indicates a modern analogue in the eastern United States. Modern distributions of mesic species in the genera present at the SW locality suggest similarities with the central and southern Appalachian Mountains and the Ozark/Ouachita Mountains, indicating a mean annual temperature range of between ring width intercorrelation and soil moisture and ring width variability and soil moisture. Comparison of individual modern site-mean statistical values with values calculated for the SW locality suggests a mesic growing environment for the SW Quercus, with moderate temperatures. Geographic placement of modern Quercus sites with site-mean statistics similar to the SW values indicates a modern analogue in the eastern United States. Modern distributions of mesic species in the genera present at the SW locality suggest similarities with the central and southern Appalachian Mountains and the Ozark/Ouachita Mountains, indicating a mean annual temperature range of ≅10 ˚C to ≅ 15 ˚C and a mean annual precipitation range of ≅750 mm to ≅1200 mm when the SW Quercus were growing. Title: Dendrochronology and Middle Miocene Petrified Oak: Modern Counterparts and Interpretation Author: Wright, William E., Streck, Martin J., Baisan, Christopher, Wright, W. Walton, Szejner, Paul Year: 2015 This study reports the first successful statistical crossdating among many ring width time series from petrified wood, thus providing a replicable continuous annual resolution window into tree growth and environmental influences during the middle Miocene. The petrified samples, of the genus Quercus, originated at the Stinking Water (SW) locality in Oregon, a Miocene-aged exposure associated with the Columbia River Basalts. 40AR/39AR dating on pillow basalt from the locality yielded a weighted Plateau Age of 13.79 ±0.09 Ma placing the death of the trees at the end of the Langhian Stage of the Middle Miocene (15.97±0.05 to 13.65±0.05 Ma), during the middle Miocene Climate Transition (MMCT). Ring width time series from 26 radii, 17 different trees, show significant intercorrelation. A Modified Coexistence Approach was applied to determine the likely climate range when the SW trees were growing. The modified approach included regression of site-mean ring width time series statistic values on estimated soil moisture for the site locations, using site-mean data from 126 modern Quercus sites from across the United States. Identification of highly significant linearities indicated strong relationships between ring width intercorrelation and soil moisture and ring width variability and soil moisture. Comparison of individual modern site-mean statistical values with values calculated for the SW locality suggests a mesic growing environment for the SW Quercus, with moderate temperatures. Geographic placement of modern Quercus sites with site-mean statistics similar to the SW values indicates a modern analogue in the eastern United States. Modern distributions of mesic species in the genera present at the SW locality suggest similarities with the central and southern Appalachian Mountains and the Ozark/Ouachita Mountains, indicating a mean annual temperature range of between ring width intercorrelation and soil moisture and ring width variability and soil moisture. Comparison of individual modern site-mean statistical values with values calculated for the SW locality suggests a mesic growing environment for the SW Quercus, with moderate temperatures. Geographic placement of modern Quercus sites with site-mean statistics similar to the SW values indicates a modern analogue in the eastern United States. Modern distributions of mesic species in the genera present at the SW locality suggest similarities with the central and southern Appalachian Mountains and the Ozark/Ouachita Mountains, indicating a mean annual temperature range of ≅10 ˚C to ≅ 15 ˚C and a mean annual precipitation range of ≅750 mm to ≅1200 mm when the SW Quercus were growing. Close

• 55. [Article] Emissions of Anaerobically Produced Methane by Trees

  Recent studies indicate that plants may be a previously overlooked but significant source of atmospheric CH₄, though there is considerable disagreement on the mechanism of production. Our work sought to ...

  Citation × Citation Citation Abstract Copy Title: Emissions of Anaerobically Produced Methane by Trees Author: Rice, Andrew L., Butenhoff, Christopher Lee, Shearer, Martha J., Teama, Doaa, Rosenstiel, Todd N., Khalil, M. A. K. Year: 2010 Recent studies indicate that plants may be a previously overlooked but significant source of atmospheric CH₄, though there is considerable disagreement on the mechanism of production. Our work sought to verify that woody deciduous trees grown under inundated conditions had the capacity for transporting CH₄ from an anaerobic subsurface to the atmosphere and to consider if such a source could be important globally. Here, we report results from a greenhouse mesocosm study that indicate significant emissions of anaerobically produced CH₄ transmitted to the atmosphere through broadleaf riparian tree species grown under flooded conditions. Using a leaf area normalized mean emission rate (0.7 ± 0.3 μg cm⁻² hr⁻¹), results were scaled globally for flooded forest regions and estimated to be 60 ± 20 Tg year⁻¹, ~10% of the global CH₄ source. The carbon isotopic composition of CH4 emitted was found to be significantly enriched compared with expectations (δ13C ~ −54‰) and provided an important isotopic constraint on the global source which coincides with the mean of the globally scaled greenhouse-based estimate. Title: Emissions of Anaerobically Produced Methane by Trees Author: Rice, Andrew L., Butenhoff, Christopher Lee, Shearer, Martha J., Teama, Doaa, Rosenstiel, Todd N., Khalil, M. A. K. Year: 2010 Recent studies indicate that plants may be a previously overlooked but significant source of atmospheric CH₄, though there is considerable disagreement on the mechanism of production. Our work sought to verify that woody deciduous trees grown under inundated conditions had the capacity for transporting CH₄ from an anaerobic subsurface to the atmosphere and to consider if such a source could be important globally. Here, we report results from a greenhouse mesocosm study that indicate significant emissions of anaerobically produced CH₄ transmitted to the atmosphere through broadleaf riparian tree species grown under flooded conditions. Using a leaf area normalized mean emission rate (0.7 ± 0.3 μg cm⁻² hr⁻¹), results were scaled globally for flooded forest regions and estimated to be 60 ± 20 Tg year⁻¹, ~10% of the global CH₄ source. The carbon isotopic composition of CH4 emitted was found to be significantly enriched compared with expectations (δ13C ~ −54‰) and provided an important isotopic constraint on the global source which coincides with the mean of the globally scaled greenhouse-based estimate. Close

• 56. [Article] Effects of Pharmaceuticals and Personal Care Products on Marine Organisms: From Single-Species Studies to an Ecosystem-Based Approach

  Pharmaceuticals and personal care products (PPCPs) are contaminants of emerging concern that are increasing in use and have demonstrated negative effects on aquatic organisms. There is a growing body of ...

  Citation × Citation Citation Abstract Copy Title: Effects of Pharmaceuticals and Personal Care Products on Marine Organisms: From Single-Species Studies to an Ecosystem-Based Approach Author: Prichard, Emma C, Granek, Elise F. Year: 2016 Pharmaceuticals and personal care products (PPCPs) are contaminants of emerging concern that are increasing in use and have demonstrated negative effects on aquatic organisms. There is a growing body of literature reporting the effects of PPCPs on freshwater organisms, but studies on the effects of PPCPs to marine and estuarine organisms are limited. Among effect studies, the vast majority examines subcellular or cellular effects, with far fewer studies examining organismal- and community-level effects. We reviewed the current published literature on marine and estuarine algae, invertebrates, fish, and mammals exposed to PPCPs, in order to expand upon current reviews. This paper builds on previous reviews of PPCP contamination in marine environments, filling prior literature gaps and adding consideration of ecosystem function and level of knowledge across marine habitat types. Finally, we reviewed and compiled data gaps suggested by current researchers and reviewers and propose a multi-level model to expand the focus of current PPCP research beyond laboratory studies. This model includes examination of direct ecological effects including food web and disease dynamics, biodiversity, community composition, and other ecosystem-level indicators of contaminant-driven change. Title: Effects of Pharmaceuticals and Personal Care Products on Marine Organisms: From Single-Species Studies to an Ecosystem-Based Approach Author: Prichard, Emma C, Granek, Elise F. Year: 2016 Pharmaceuticals and personal care products (PPCPs) are contaminants of emerging concern that are increasing in use and have demonstrated negative effects on aquatic organisms. There is a growing body of literature reporting the effects of PPCPs on freshwater organisms, but studies on the effects of PPCPs to marine and estuarine organisms are limited. Among effect studies, the vast majority examines subcellular or cellular effects, with far fewer studies examining organismal- and community-level effects. We reviewed the current published literature on marine and estuarine algae, invertebrates, fish, and mammals exposed to PPCPs, in order to expand upon current reviews. This paper builds on previous reviews of PPCP contamination in marine environments, filling prior literature gaps and adding consideration of ecosystem function and level of knowledge across marine habitat types. Finally, we reviewed and compiled data gaps suggested by current researchers and reviewers and propose a multi-level model to expand the focus of current PPCP research beyond laboratory studies. This model includes examination of direct ecological effects including food web and disease dynamics, biodiversity, community composition, and other ecosystem-level indicators of contaminant-driven change. Close

• 57. [Article] Agricultural Management Decisions Impact Isoprene Emission and Physiology of Arundo donax, an Emerging Bioenergy Crop

  Arundo donax (Giant Reed) is quickly being developed as a rapidly-growing, robust, and highly productive bioenergy crop, with large scale cultivation of this species planned for the Columbia River basin ...

  Citation × Citation Citation Abstract Copy Title: Agricultural Management Decisions Impact Isoprene Emission and Physiology of Arundo donax, an Emerging Bioenergy Crop Author: Maxfield, Jason Charles Year: 2014 Arundo donax (Giant Reed) is quickly being developed as a rapidly-growing, robust, and highly productive bioenergy crop, with large scale cultivation of this species planned for the Columbia River basin of the Pacific Northwest (USA). Despite its potential as a next generation biomass crop, relatively few studies have examined the physiological performance of A. donax under agricultural conditions. Unlike traditional crops, A. donax is known to be a high-emitter of the volatile compound isoprene, which may significantly impact regional air quality, but it has not been widely cultivated in North America and little is known about how this species will perform in the Pacific Northwest. Over two field seasons, we measured isoprene fluxes from A. donax plants in both greenhouse conditions and in an agricultural field setting under a variety of conditions and fertilizer treatments. We also measured several other attributes of A. donax productivity and leaf physiology including chlorophyll content, photosynthesis rate, stomatal conductance, specific leaf mass, water use efficiency and gas exchange. We found that A. donax physiologically performs well under cultivation in the Columbia River basin, but that it also emits isoprene at significantly higher rates than previous reports indicate. We also found that both isoprene emission and leaf physiology were highly affected by agricultural management decisions, including nitrogen and irrigation management. Our findings indicate that crop management strategies can be developed that simultaneously seek to minimize isoprene emission while maximizing biomass production in this newly emerging bioenergy crop. Title: Agricultural Management Decisions Impact Isoprene Emission and Physiology of Arundo donax, an Emerging Bioenergy Crop Author: Maxfield, Jason Charles Year: 2014 Arundo donax (Giant Reed) is quickly being developed as a rapidly-growing, robust, and highly productive bioenergy crop, with large scale cultivation of this species planned for the Columbia River basin of the Pacific Northwest (USA). Despite its potential as a next generation biomass crop, relatively few studies have examined the physiological performance of A. donax under agricultural conditions. Unlike traditional crops, A. donax is known to be a high-emitter of the volatile compound isoprene, which may significantly impact regional air quality, but it has not been widely cultivated in North America and little is known about how this species will perform in the Pacific Northwest. Over two field seasons, we measured isoprene fluxes from A. donax plants in both greenhouse conditions and in an agricultural field setting under a variety of conditions and fertilizer treatments. We also measured several other attributes of A. donax productivity and leaf physiology including chlorophyll content, photosynthesis rate, stomatal conductance, specific leaf mass, water use efficiency and gas exchange. We found that A. donax physiologically performs well under cultivation in the Columbia River basin, but that it also emits isoprene at significantly higher rates than previous reports indicate. We also found that both isoprene emission and leaf physiology were highly affected by agricultural management decisions, including nitrogen and irrigation management. Our findings indicate that crop management strategies can be developed that simultaneously seek to minimize isoprene emission while maximizing biomass production in this newly emerging bioenergy crop. Close

• 58. [Article] The analysis and use of methodologies for the study of the diets of long-eared owls from three environments in north central Oregon

  Part I of this study presents a procedure for standardization of pellet analysis methodologies which improves estimation of prey biomass and determines the number of pellets needed to estimate prey diversity ...

  Citation × Citation Citation Abstract Copy Title: The analysis and use of methodologies for the study of the diets of long-eared owls from three environments in north central Oregon Author: Barss, John M. Year: 1985 Part I of this study presents a procedure for standardization of pellet analysis methodologies which improves estimation of prey biomass and determines the number of pellets needed to estimate prey diversity indices. The procedure was developed to provide a simple, easily replicated methodology for the study of pellets which also retains maximal data recorded from pellet analysis. A sample size of ten Long-eared Owl pellets was found adequate to calculate diversity indices with no significant loss of accuracy when compared to total pellets recovered from beneath a roosting site. Analysis of the total sample of pellets from a specific roost provided information on intraspecies size selection by Long-eared Owls and also increased the probability of finding remains of rare prey in pellets from the areas studied. Part II of this study investigates the influences of seasonality and habitat differences on prey selection by Long-eared Owls in north-central Oregon. Differences in habitat where Long-eared Owls foraged were found to significantly influence prey species selection of Thomomys talpoides , Lagurus curtatus, Peromyscus maniculatus, Microtus montanus, and Perognathus parvus. Significant seasonal differences were also observed in the consumption of T. talpoides and M. montanus. Analysis of intraspecific size selection of northern pocket gophers by Long-eared Owls supports the observation that size of prey influences the foraging strategies of Long-eared Owls to a greater degree than does species composition. Title: The analysis and use of methodologies for the study of the diets of long-eared owls from three environments in north central Oregon Author: Barss, John M. Year: 1985 Part I of this study presents a procedure for standardization of pellet analysis methodologies which improves estimation of prey biomass and determines the number of pellets needed to estimate prey diversity indices. The procedure was developed to provide a simple, easily replicated methodology for the study of pellets which also retains maximal data recorded from pellet analysis. A sample size of ten Long-eared Owl pellets was found adequate to calculate diversity indices with no significant loss of accuracy when compared to total pellets recovered from beneath a roosting site. Analysis of the total sample of pellets from a specific roost provided information on intraspecies size selection by Long-eared Owls and also increased the probability of finding remains of rare prey in pellets from the areas studied. Part II of this study investigates the influences of seasonality and habitat differences on prey selection by Long-eared Owls in north-central Oregon. Differences in habitat where Long-eared Owls foraged were found to significantly influence prey species selection of Thomomys talpoides , Lagurus curtatus, Peromyscus maniculatus, Microtus montanus, and Perognathus parvus. Significant seasonal differences were also observed in the consumption of T. talpoides and M. montanus. Analysis of intraspecific size selection of northern pocket gophers by Long-eared Owls supports the observation that size of prey influences the foraging strategies of Long-eared Owls to a greater degree than does species composition. Close

• 59. [Article] Long-term Ecological Research in Forest Park: Tracking Urban Impacts to Forest Structure and Productivity

  Current and historic land use practices as well as exposure to an urban environment can impact forest structure and function. Past and ongoing research in Forest Park, a large urban forest in Portland, ...

  Citation × Citation Citation Abstract Copy Title: Long-term Ecological Research in Forest Park: Tracking Urban Impacts to Forest Structure and Productivity Author: Addessi, Andrew, Dresner, Marion Year: 2017 Current and historic land use practices as well as exposure to an urban environment can impact forest structure and function. Past and ongoing research in Forest Park, a large urban forest in Portland, Oregon, suggests that mature Douglas-fir (Psuedotsuga meziesii) dominated conifer stands in the more urban end of the park are not developing certain late successional features. Notably, they lack a shade-tolerant conifer understory composed of western hemlock (Tsuga heterophylla) and western red-cedar (Thuja plicata). Here, I present three lines of investigation taken from several 1-hectare permanent long-term ecological research (LTER) plots in Forest Park. First, I investigated whether plot-level differences in the intensity of past-land use, namely clearcut logging and fire, has created legacy effect on soil health, as measured by soil organic matter, soil pH, and depth of organic horizon. Second, I present 5-year growth and mortality data to characterize productivity patterns in these plots. Last, I analyzed light detection and ranging (LiDAR) data covering Forest Park to determine if canopy structural features diverged across urban and rural sections of the park. Overall, the results indicate some legacy of soil impact to urban areas most effected by past intensive logging. However, forest productivity, mortality, and structural patterns were generally consistent with stand age, and did not show strong patterns related to urban proximity. These results indicate that the lack of shade tolerant species might be most limited by ground level impacts. These results help inform park managers that regeneration of late successional tree species may require active restoration practices that focus on establishing more optimal growing sites. Title: Long-term Ecological Research in Forest Park: Tracking Urban Impacts to Forest Structure and Productivity Author: Addessi, Andrew, Dresner, Marion Year: 2017 Current and historic land use practices as well as exposure to an urban environment can impact forest structure and function. Past and ongoing research in Forest Park, a large urban forest in Portland, Oregon, suggests that mature Douglas-fir (Psuedotsuga meziesii) dominated conifer stands in the more urban end of the park are not developing certain late successional features. Notably, they lack a shade-tolerant conifer understory composed of western hemlock (Tsuga heterophylla) and western red-cedar (Thuja plicata). Here, I present three lines of investigation taken from several 1-hectare permanent long-term ecological research (LTER) plots in Forest Park. First, I investigated whether plot-level differences in the intensity of past-land use, namely clearcut logging and fire, has created legacy effect on soil health, as measured by soil organic matter, soil pH, and depth of organic horizon. Second, I present 5-year growth and mortality data to characterize productivity patterns in these plots. Last, I analyzed light detection and ranging (LiDAR) data covering Forest Park to determine if canopy structural features diverged across urban and rural sections of the park. Overall, the results indicate some legacy of soil impact to urban areas most effected by past intensive logging. However, forest productivity, mortality, and structural patterns were generally consistent with stand age, and did not show strong patterns related to urban proximity. These results indicate that the lack of shade tolerant species might be most limited by ground level impacts. These results help inform park managers that regeneration of late successional tree species may require active restoration practices that focus on establishing more optimal growing sites. Close

• 60. [Article] Prospectus for Future Research: Temperature Effects on Green Macroalgae

  Research on temperature change has received attention from scientists. Not only has temperature change attracted scientists who study the Earth’s weather and climate, but also those who study plants and ...

  Citation × Citation Citation Abstract Copy Title: Prospectus for Future Research: Temperature Effects on Green Macroalgae Author: Gonzalez Pelayo, Ana Year: 2016 Research on temperature change has received attention from scientists. Not only has temperature change attracted scientists who study the Earth’s weather and climate, but also those who study plants and animals on land and in oceans. The research being conducted looks at how these temperature changes affect the anatomy and physiology of organisms, but other research also studies how terrestrial and aquatic ecosystems have changed and the types of responses that have occurred as a result. For many years, research in terrestrial ecosystems has dominated research in aquatic ecosystems. Limited research has been conducted in aquatic ecosystems involving green macroalgae, which are primary producers and an essential part of these ecosystems. Within the last fifteen years, research regarding the effects of temperature change on green macroalgae has shown that temperature affects photosynthesis and biochemistry. Overall, photosynthesis is almost completely inhibited after sufficient exposure due to damage in Photosystem II. There is also a substantial change in the production of chemical molecules known as reactive oxygen species that caused physical damage to the algal cells as well as a change in structure for proteins that is essential for function. I reviewed the literature within the past fifteen years, regarding the effects of temperature on a variety of green macroalgae species. The results indicated that after sufficient exposure, the photosynthetic rate of macroalgae is reduced significantly and that the change in chemistry lead to alterations in the physiology of green macroalgae. In this thesis, I propose two possible directions for algae research that involves genetic sequencing of a model species to identify a possible temperature tolerance gene, as well as the potential use of green macroalgae in photobioreactors as a source of renewable energy. Title: Prospectus for Future Research: Temperature Effects on Green Macroalgae Author: Gonzalez Pelayo, Ana Year: 2016 Research on temperature change has received attention from scientists. Not only has temperature change attracted scientists who study the Earth’s weather and climate, but also those who study plants and animals on land and in oceans. The research being conducted looks at how these temperature changes affect the anatomy and physiology of organisms, but other research also studies how terrestrial and aquatic ecosystems have changed and the types of responses that have occurred as a result. For many years, research in terrestrial ecosystems has dominated research in aquatic ecosystems. Limited research has been conducted in aquatic ecosystems involving green macroalgae, which are primary producers and an essential part of these ecosystems. Within the last fifteen years, research regarding the effects of temperature change on green macroalgae has shown that temperature affects photosynthesis and biochemistry. Overall, photosynthesis is almost completely inhibited after sufficient exposure due to damage in Photosystem II. There is also a substantial change in the production of chemical molecules known as reactive oxygen species that caused physical damage to the algal cells as well as a change in structure for proteins that is essential for function. I reviewed the literature within the past fifteen years, regarding the effects of temperature on a variety of green macroalgae species. The results indicated that after sufficient exposure, the photosynthetic rate of macroalgae is reduced significantly and that the change in chemistry lead to alterations in the physiology of green macroalgae. In this thesis, I propose two possible directions for algae research that involves genetic sequencing of a model species to identify a possible temperature tolerance gene, as well as the potential use of green macroalgae in photobioreactors as a source of renewable energy. Close

• 61. [Article] The Importance of Urban Habitat Connectivity and Influence on Native Avian Species and Community Science

  In what ways do small-scale urban backyards contribute to local bird abundance and biodiversity? In what ways might these yards serve as an ‘extension’ of neighboring native forest areas? This project ...

  Citation × Citation Citation Abstract Copy Title: The Importance of Urban Habitat Connectivity and Influence on Native Avian Species and Community Science Author: Gulick, Kristen S. Year: 2017 In what ways do small-scale urban backyards contribute to local bird abundance and biodiversity? In what ways might these yards serve as an ‘extension’ of neighboring native forest areas? This project investigates the contribution that a group of backyards, certified through the Backyard Habitat Certification Program, have in the suburb of Hillsdale, Oregon, which is adjacent to the natural area of Keller Woodland. Backyard owners functioning as citizen or community scientists assisted with conducting residential bird point-counts once a week in each backyard and the natural area. Counts were done for a total of 8 weeks during nesting season to better understand how backyard habitat restoration might affect their habitat especially when in close proximity to a natural area. The goal of the project was to help better understand the beneficial effects of urban gardening using native plants and diverse vegetation structure as this relates to bird species richness, and to explore the importance of community scientist contributions. Although the sample size was small, no significant trends were found, but the involvement of community scientists indicated increased skill, depth of understanding, and increased motivation for all participating backyard habitat owners. More backyards are needed for future research and extension into lower-income neighborhoods would be very beneficial to increase awareness of urban habitat connectivity and the diversity seen in backyard environmental characteristics and yard owner backyard habitat knowledge. A larger sample size could reveal correlations and provide a greater significance in data findings for bird abundance and diversity. A logical extension of this project would be to investigate food-web effects, specifically avian prey species, and smaller green-spaces that are often present in urban neighborhoods in addition to the large green-spaces. Authors: Kristen S. Gulick, Marion Dresner, Nikkie West Presenter: Kristen S. Gulick Title: The Importance of Urban Habitat Connectivity and Influence on Native Avian Species and Community Science Author: Gulick, Kristen S. Year: 2017 In what ways do small-scale urban backyards contribute to local bird abundance and biodiversity? In what ways might these yards serve as an ‘extension’ of neighboring native forest areas? This project investigates the contribution that a group of backyards, certified through the Backyard Habitat Certification Program, have in the suburb of Hillsdale, Oregon, which is adjacent to the natural area of Keller Woodland. Backyard owners functioning as citizen or community scientists assisted with conducting residential bird point-counts once a week in each backyard and the natural area. Counts were done for a total of 8 weeks during nesting season to better understand how backyard habitat restoration might affect their habitat especially when in close proximity to a natural area. The goal of the project was to help better understand the beneficial effects of urban gardening using native plants and diverse vegetation structure as this relates to bird species richness, and to explore the importance of community scientist contributions. Although the sample size was small, no significant trends were found, but the involvement of community scientists indicated increased skill, depth of understanding, and increased motivation for all participating backyard habitat owners. More backyards are needed for future research and extension into lower-income neighborhoods would be very beneficial to increase awareness of urban habitat connectivity and the diversity seen in backyard environmental characteristics and yard owner backyard habitat knowledge. A larger sample size could reveal correlations and provide a greater significance in data findings for bird abundance and diversity. A logical extension of this project would be to investigate food-web effects, specifically avian prey species, and smaller green-spaces that are often present in urban neighborhoods in addition to the large green-spaces. Authors: Kristen S. Gulick, Marion Dresner, Nikkie West Presenter: Kristen S. Gulick Close

• 62. [Article] Community Science and the Ecological Merits of Backyard Habitat Patches and Adjacent Green-Spaces for Urban Avian Species

  In what ways do small-scale urban backyards contribute to local bird abundance and biodiversity? In what ways might these yards serve as an ‘extension’ of neighboring native forest areas? This project ...

  Citation × Citation Citation Abstract Copy Title: Community Science and the Ecological Merits of Backyard Habitat Patches and Adjacent Green-Spaces for Urban Avian Species Author: Gulick, Kristen S., West, Nikkie, Dresner, Marion Year: 2017 In what ways do small-scale urban backyards contribute to local bird abundance and biodiversity? In what ways might these yards serve as an ‘extension’ of neighboring native forest areas? This project investigates the contribution that a group of backyards, certified through the Backyard Habitat Certification Program, have in the suburb of Hillsdale, Oregon, which is adjacent to the natural area of Keller Woodland. Backyard owners functioning as citizen or community scientists assisted with conducting residential bird point-counts once a week in each backyard and the natural area. Counts were done for a total of 8 weeks during nesting season to better understand how backyard habitat restoration might affect their habitat especially when in close proximity to a natural area. The goal of the project was to help better understand the beneficial effects of urban gardening using native plants and diverse vegetation structure as this relates to bird species richness, and to explore the importance of community scientist contributions. Although the sample size was small, no significant trends were found, but the involvement of community scientists indicated increased skill, depth of understanding, and increased motivation for all participating backyard habitat owners. More backyards are needed for future research and extension into lower-income neighborhoods would be very beneficial to increase awareness of urban habitat connectivity and the diversity seen in backyard environmental characteristics and yard owner backyard habitat knowledge. A larger sample size could reveal correlations and provide a greater significance in data findings for bird abundance and diversity. A logical extension of this project would be to investigate food-web effects, specifically avian prey species, and smaller green-spaces that are often present in urban neighborhoods in addition to the large green-spaces. Title: Community Science and the Ecological Merits of Backyard Habitat Patches and Adjacent Green-Spaces for Urban Avian Species Author: Gulick, Kristen S., West, Nikkie, Dresner, Marion Year: 2017 In what ways do small-scale urban backyards contribute to local bird abundance and biodiversity? In what ways might these yards serve as an ‘extension’ of neighboring native forest areas? This project investigates the contribution that a group of backyards, certified through the Backyard Habitat Certification Program, have in the suburb of Hillsdale, Oregon, which is adjacent to the natural area of Keller Woodland. Backyard owners functioning as citizen or community scientists assisted with conducting residential bird point-counts once a week in each backyard and the natural area. Counts were done for a total of 8 weeks during nesting season to better understand how backyard habitat restoration might affect their habitat especially when in close proximity to a natural area. The goal of the project was to help better understand the beneficial effects of urban gardening using native plants and diverse vegetation structure as this relates to bird species richness, and to explore the importance of community scientist contributions. Although the sample size was small, no significant trends were found, but the involvement of community scientists indicated increased skill, depth of understanding, and increased motivation for all participating backyard habitat owners. More backyards are needed for future research and extension into lower-income neighborhoods would be very beneficial to increase awareness of urban habitat connectivity and the diversity seen in backyard environmental characteristics and yard owner backyard habitat knowledge. A larger sample size could reveal correlations and provide a greater significance in data findings for bird abundance and diversity. A logical extension of this project would be to investigate food-web effects, specifically avian prey species, and smaller green-spaces that are often present in urban neighborhoods in addition to the large green-spaces. Close

• 63. [Article] A taxonomic study of two nominal subspecies of pikas (Ochotona princeps) in the Cascade Mountains of Oregon

  Pikas from four colonies in the Cascade Mountains of Oregon were examined. Two colonies were chosen from within the geographical distribution of two nominal subspecies. A discriminate analysis of morphological ...

  Citation × Citation Citation Abstract Copy Title: A taxonomic study of two nominal subspecies of pikas (Ochotona princeps) in the Cascade Mountains of Oregon Author: Coots, Richard M Year: 1972 Pikas from four colonies in the Cascade Mountains of Oregon were examined. Two colonies were chosen from within the geographical distribution of two nominal subspecies. A discriminate analysis of morphological measurements taken from the specimens showed that each colony could be distinguished from each other. Each colony studied showed more intra-colony similarity than inter-colony similarity regardless of distance separating the colonies or subspecies designations. The results indicate that the validity of subspecies designations for this species can be questioned. Title: A taxonomic study of two nominal subspecies of pikas (Ochotona princeps) in the Cascade Mountains of Oregon Author: Coots, Richard M Year: 1972 Pikas from four colonies in the Cascade Mountains of Oregon were examined. Two colonies were chosen from within the geographical distribution of two nominal subspecies. A discriminate analysis of morphological measurements taken from the specimens showed that each colony could be distinguished from each other. Each colony studied showed more intra-colony similarity than inter-colony similarity regardless of distance separating the colonies or subspecies designations. The results indicate that the validity of subspecies designations for this species can be questioned. Close

• 64. [Article] A Semiquantitative Analysis of PCB and P,P-DDE Residues in Stranded Marine Mammals Using High Performance Liquid Chromatography

  Organochlorines are ubiquitous pollutants of the marine environment. These lipid-soluble and highly persistent compounds are found in detectable amounts in almost all marine organisms, and accumulate in ...

  Citation × Citation Citation Abstract Copy Title: A Semiquantitative Analysis of PCB and P,P-DDE Residues in Stranded Marine Mammals Using High Performance Liquid Chromatography Author: Hayteas, David Lawrence Year: 1996 Organochlorines are ubiquitous pollutants of the marine environment. These lipid-soluble and highly persistent compounds are found in detectable amounts in almost all marine organisms, and accumulate in the lipid tissues of marine animals. This bioaccumulation leads to biomagnification of these contaminants in higher trophic levels. Near the top of many marine food chains are found the marine mammals, in whose blubber high levels of organochlorine residues have been measured. The most commonly occurring of these pollutants in these animals are the polychlorinated biphenyls (PCB's) and p,p-DDE, a metabolite of the insecticide DDT. These substances have been shown to cause disruptions in the endocrine, immune, and reproductive systems, and are passed from mother to offspring through the placenta and by lactation. Presence and levels of residues of these compounds are, therefore, monitored in marine mammals to provide an indication of the health of a given population and the environment in which they live. Such monitoring is generally done with the use of gas chromatography (GC). High performance liquid chromatography (HPLC) is little used due to the poor ultraviolet (UV) absorbance properties of many of the organochlorines. PCB's and p,p-DDE do absorb UV well enough at concentrations usually encountered in marine mammals to permit the use of HPLC for detection and semiquantification of these substances. A method was developed for the screening of blubber of marine mammals for total PCB's and p,p-DDE using HPLC. The method was applied to the detection and approximation of levels of these two organochlorines in marine mammals from the east and west coasts of the United States. Geographical differences in levels of the two pollutants were found, indicating differences in primary feeding ranges. Evidence of placental transfer of these two organochlorines was also found. Especially high residue levels were found in the blubber of stranded killer whales, indicating that acquisition of high pollutant burdens is still a problem in these top predators. It was concluded that HPLC can be used to screen marine mammals for PCB's and p,p-DDE, and that residue levels determined can be useful in investigating species range, pollutant burdens, and health of populations. Title: A Semiquantitative Analysis of PCB and P,P-DDE Residues in Stranded Marine Mammals Using High Performance Liquid Chromatography Author: Hayteas, David Lawrence Year: 1996 Organochlorines are ubiquitous pollutants of the marine environment. These lipid-soluble and highly persistent compounds are found in detectable amounts in almost all marine organisms, and accumulate in the lipid tissues of marine animals. This bioaccumulation leads to biomagnification of these contaminants in higher trophic levels. Near the top of many marine food chains are found the marine mammals, in whose blubber high levels of organochlorine residues have been measured. The most commonly occurring of these pollutants in these animals are the polychlorinated biphenyls (PCB's) and p,p-DDE, a metabolite of the insecticide DDT. These substances have been shown to cause disruptions in the endocrine, immune, and reproductive systems, and are passed from mother to offspring through the placenta and by lactation. Presence and levels of residues of these compounds are, therefore, monitored in marine mammals to provide an indication of the health of a given population and the environment in which they live. Such monitoring is generally done with the use of gas chromatography (GC). High performance liquid chromatography (HPLC) is little used due to the poor ultraviolet (UV) absorbance properties of many of the organochlorines. PCB's and p,p-DDE do absorb UV well enough at concentrations usually encountered in marine mammals to permit the use of HPLC for detection and semiquantification of these substances. A method was developed for the screening of blubber of marine mammals for total PCB's and p,p-DDE using HPLC. The method was applied to the detection and approximation of levels of these two organochlorines in marine mammals from the east and west coasts of the United States. Geographical differences in levels of the two pollutants were found, indicating differences in primary feeding ranges. Evidence of placental transfer of these two organochlorines was also found. Especially high residue levels were found in the blubber of stranded killer whales, indicating that acquisition of high pollutant burdens is still a problem in these top predators. It was concluded that HPLC can be used to screen marine mammals for PCB's and p,p-DDE, and that residue levels determined can be useful in investigating species range, pollutant burdens, and health of populations. Close

• 65. [Article] Interactions Among Fuel Management, Species Composition, Bark Beetles, and Climate Change and the Potential Effects on Forests of the Lake Tahoe Basin

  Climate-driven increases in wildfires, drought conditions, and insect outbreaks are critical threats to forest carbon stores. In particular, bark beetles are important disturbance agents although their ...

  Citation × Citation Citation Abstract Copy Title: Interactions Among Fuel Management, Species Composition, Bark Beetles, and Climate Change and the Potential Effects on Forests of the Lake Tahoe Basin Author: Scheller, Robert M., Kretchun, Alec M., Loudermilk, E. Louise, Hurteau, Matthew D., Weisberg, Peter J., Skinner, Carl Year: 2017 Climate-driven increases in wildfires, drought conditions, and insect outbreaks are critical threats to forest carbon stores. In particular, bark beetles are important disturbance agents although their long-term interactions with future climate change are poorly understood. Droughts and the associated moisture deficit contribute to the onset of bark beetle outbreaks although outbreak extent and severity is dependent upon the density of host trees, wildfire, and forest management. Our objective was to estimate the effects of climate change and bark beetle outbreaks on ecosystem carbon dynamics over the next century in a western US forest. Specifically, we hypothesized that (a) bark beetle outbreaks under climate change would reduce net ecosystem carbon balance (NECB) and increase uncertainty and (b) these effects could be ameliorated by fuels management. We also examined the specific tree species dynamics—competition and release—that determined NECB response to bark beetle outbreaks. Our study area was the Lake Tahoe Basin (LTB), CA and NV, USA, an area of diverse forest types encompassing steep elevation and climatic gradients and representative of mixed-conifer forests throughout the western United States. We simulated climate change, bark beetles, wildfire, and fuels management using a landscape-scale stochastic model of disturbance and succession. We simulated the period 2010–2100 using downscaled climate projections. Recurring droughts generated conditions conducive to large-scale outbreaks; the resulting large and sustained outbreaks significantly increased the probability of LTB forests becoming C sources over decadal time scales, with slower-than-anticipated landscape-scale recovery. Tree species composition was substantially altered with a reduction in functional redundancy and productivity. Results indicate heightened uncertainty due to the synergistic influences of climate change and interacting disturbances. Our results further indicate that current fuel management practices will not be effective at reducing landscape-scale outbreak mortality. Our results provide critical insights into the interaction of drivers (bark beetles, wildfire, fuel management) that increase the risk of C loss and shifting community composition if bark beetle outbreaks become more frequent. Title: Interactions Among Fuel Management, Species Composition, Bark Beetles, and Climate Change and the Potential Effects on Forests of the Lake Tahoe Basin Author: Scheller, Robert M., Kretchun, Alec M., Loudermilk, E. Louise, Hurteau, Matthew D., Weisberg, Peter J., Skinner, Carl Year: 2017 Climate-driven increases in wildfires, drought conditions, and insect outbreaks are critical threats to forest carbon stores. In particular, bark beetles are important disturbance agents although their long-term interactions with future climate change are poorly understood. Droughts and the associated moisture deficit contribute to the onset of bark beetle outbreaks although outbreak extent and severity is dependent upon the density of host trees, wildfire, and forest management. Our objective was to estimate the effects of climate change and bark beetle outbreaks on ecosystem carbon dynamics over the next century in a western US forest. Specifically, we hypothesized that (a) bark beetle outbreaks under climate change would reduce net ecosystem carbon balance (NECB) and increase uncertainty and (b) these effects could be ameliorated by fuels management. We also examined the specific tree species dynamics—competition and release—that determined NECB response to bark beetle outbreaks. Our study area was the Lake Tahoe Basin (LTB), CA and NV, USA, an area of diverse forest types encompassing steep elevation and climatic gradients and representative of mixed-conifer forests throughout the western United States. We simulated climate change, bark beetles, wildfire, and fuels management using a landscape-scale stochastic model of disturbance and succession. We simulated the period 2010–2100 using downscaled climate projections. Recurring droughts generated conditions conducive to large-scale outbreaks; the resulting large and sustained outbreaks significantly increased the probability of LTB forests becoming C sources over decadal time scales, with slower-than-anticipated landscape-scale recovery. Tree species composition was substantially altered with a reduction in functional redundancy and productivity. Results indicate heightened uncertainty due to the synergistic influences of climate change and interacting disturbances. Our results further indicate that current fuel management practices will not be effective at reducing landscape-scale outbreak mortality. Our results provide critical insights into the interaction of drivers (bark beetles, wildfire, fuel management) that increase the risk of C loss and shifting community composition if bark beetle outbreaks become more frequent. Close

• 66. [Article] OSMB AIS Funds Final Report: Task 1 Boat Ramp Monitoring for New Zealand Mud Snails

  The New Zealand mud snail (Potamopyrgus antipodarum; NZMS) is an invasive species found in a variety of ecosystems in Oregon, including brackish estuaries, heavily used recreational rivers, and highly ...

  Citation × Citation Citation Abstract Copy Title: OSMB AIS Funds Final Report: Task 1 Boat Ramp Monitoring for New Zealand Mud Snails Author: Brenneis, Valance, Cimino, Samuel, Strecker, Angela L. Year: 2013 The New Zealand mud snail (Potamopyrgus antipodarum; NZMS) is an invasive species found in a variety of ecosystems in Oregon, including brackish estuaries, heavily used recreational rivers, and highly trafficked coastal freshwater lakes. NZMS are an invasive species of concern because once established, they may out-compete native invertebrate grazers, such as native insect larvae that provide important food resources for fish, and NZMS themselves provide little nutritional value. Monitoring for the presence and population density of NZMS was performed at boat ramps located along several water bodies in 2006 – 2007. These water bodies were then re-sampled during the summer of 2012 and winter of 2013 to investigate changes in population densities, as well as the potential spread of NZMS. In addition, six brackish estuaries and six freshwater coastal lakes were sampled in the summer of 2013 once again for population densities but also for stable isotope analysis to better understand the influence NZMS may have on these different ecosystem food webs. This work addresses how NZMS densities differ across invaded sites, how densities vary over time, how community diversity in rivers and estuaries varies between sites and over time, whether there is a correlation between NZMS densities and invertebrate diversity, and whether NZMS density correlates with decreasing dietary specificity for competing benthic invertebrates. Samples were sorted, identified, and counted, and stable isotope analyses from the summer 2013 field season were conducted on macroinvertebrates, zooplankton, and primary producers at the UC Davis Stable Isotope Facility. NZMS densities were found to be dynamic, with population densities increasing and decreasing over time and space. Additionally, two waterbodies (the lower Siuslaw River and the Nestucca River Estuary) previously without reported NZMS presence were identified to have established NZMS populations. Across invaded sites during the 2006 and 2012 sampling periods, there was a strong negative correlation between NZMS density and the diversity of the benthic invertebrate community. Within sites, no significant correlation was detected. High NZMS population densities were found to have a significantly negative relationship with detritivore density populations in the freshwater lake sites sampled in the summer of 2013. There were no significant relationships between NZMS and the density of any particular macroinvertebrate feeding habit group in estuaries. Additionally, stable isotope analyses indicated that NZMS at high population densities in the freshwater lakes share a similar stable isotope signature with macroinvertebrate herbivores, but NZMS had a more specific or narrow dietary range suggesting macroinvertebrate herbivores had more generalized diets than NZMS when at high densities. Conversely, NZMS population densities in the brackish estuary ecosystems showed no discernable patterns from the stable isotope analyses to indicate that their presence, either at high or low density, had an effect on the estuarine food webs. We concluded that continued research on long term population dynamics of invasive species like NZMS and their effects on native food webs remain crucial to future management and mitigation. Title: OSMB AIS Funds Final Report: Task 1 Boat Ramp Monitoring for New Zealand Mud Snails Author: Brenneis, Valance, Cimino, Samuel, Strecker, Angela L. Year: 2013 The New Zealand mud snail (Potamopyrgus antipodarum; NZMS) is an invasive species found in a variety of ecosystems in Oregon, including brackish estuaries, heavily used recreational rivers, and highly trafficked coastal freshwater lakes. NZMS are an invasive species of concern because once established, they may out-compete native invertebrate grazers, such as native insect larvae that provide important food resources for fish, and NZMS themselves provide little nutritional value. Monitoring for the presence and population density of NZMS was performed at boat ramps located along several water bodies in 2006 – 2007. These water bodies were then re-sampled during the summer of 2012 and winter of 2013 to investigate changes in population densities, as well as the potential spread of NZMS. In addition, six brackish estuaries and six freshwater coastal lakes were sampled in the summer of 2013 once again for population densities but also for stable isotope analysis to better understand the influence NZMS may have on these different ecosystem food webs. This work addresses how NZMS densities differ across invaded sites, how densities vary over time, how community diversity in rivers and estuaries varies between sites and over time, whether there is a correlation between NZMS densities and invertebrate diversity, and whether NZMS density correlates with decreasing dietary specificity for competing benthic invertebrates. Samples were sorted, identified, and counted, and stable isotope analyses from the summer 2013 field season were conducted on macroinvertebrates, zooplankton, and primary producers at the UC Davis Stable Isotope Facility. NZMS densities were found to be dynamic, with population densities increasing and decreasing over time and space. Additionally, two waterbodies (the lower Siuslaw River and the Nestucca River Estuary) previously without reported NZMS presence were identified to have established NZMS populations. Across invaded sites during the 2006 and 2012 sampling periods, there was a strong negative correlation between NZMS density and the diversity of the benthic invertebrate community. Within sites, no significant correlation was detected. High NZMS population densities were found to have a significantly negative relationship with detritivore density populations in the freshwater lake sites sampled in the summer of 2013. There were no significant relationships between NZMS and the density of any particular macroinvertebrate feeding habit group in estuaries. Additionally, stable isotope analyses indicated that NZMS at high population densities in the freshwater lakes share a similar stable isotope signature with macroinvertebrate herbivores, but NZMS had a more specific or narrow dietary range suggesting macroinvertebrate herbivores had more generalized diets than NZMS when at high densities. Conversely, NZMS population densities in the brackish estuary ecosystems showed no discernable patterns from the stable isotope analyses to indicate that their presence, either at high or low density, had an effect on the estuarine food webs. We concluded that continued research on long term population dynamics of invasive species like NZMS and their effects on native food webs remain crucial to future management and mitigation. Close

• 67. [Article] Using Archaeological Fish Remains to Determine the Native Status of Anadromous Salmonids in the Upper Klamath Basin (Oregon, USA) Through mtDNA and Geochemical Analysis

  Within the Upper Klamath Basin, Oregon, the native status of anadromous salmonids (Oncorhynchus spp.) has been a long standing question. Ongoing efforts to establish if these fish were native to the region ...

  Citation × Citation Citation Abstract Copy Title: Using Archaeological Fish Remains to Determine the Native Status of Anadromous Salmonids in the Upper Klamath Basin (Oregon, USA) Through mtDNA and Geochemical Analysis Author: Stevenson, Alexander E. Year: 2011 Within the Upper Klamath Basin, Oregon, the native status of anadromous salmonids (Oncorhynchus spp.) has been a long standing question. Ongoing efforts to establish if these fish were native to the region prior to the construction of the Copco I Dam on the Klamath River (c.1917) have relied on sparse, contradictory and sometimes unreliable historic documentation and informant testimony. Current restoration projects with very high financial and social costs necessitate accurate and reliable data on salmonid species which once called the region home. Often, archaeolofaunal remains present a novel way to determine species present in an area prior to major habitat losses. This project analyzed fish remains from five previously excavated archaeological sites within the Upper Klamath Basin to determine which salmonid species were present prior to dam construction. A total of 5,859 fish remains were identified to at least taxonomic order using morphological distinctions. Site collections were dominated by those of catostomids (suckers) and cyprinids (minnows). Archaeological deposits at these sites dated as far back as approximately 7,500 BP but were primarily from the last 2,000 years. Only eighty-one salmonid remains were observed within the sites included in this project. The low frequency of salmonid remains in these sites may be the result of cultural and/or natural processes such as density mediated attrition and archaeological sampling. Of these 81 specimens, 38 were subjected to mtDNA analysis for species identification. Seven specimens did not yield DNA sufficient for species identification, six specimens were identified as O. tshawytscha (Chinook) and the remaining 25 specimens were identified as O. mykiss (steelhead or redband trout). Geochemical analysis was used to determine the life history of the fish represented by the remains within these collections. Strontium Calcium (Sr:Ca) ratios were measured on twenty-eight specimens. Three specimens were determined to be from freshwater resident fish and 25 were determined to be from anadromous fish. The specimens which were genetically identified as O. tshawytscha were all determined to be anadromous. Of the 18 specimens which were identified as O. mykiss and were subjected to geochemical analysis two were from freshwater resident fish and sixteen were from anadromous fish. Four samples were not characterized genetically but were subjected to geochemical analysis; three of these were determined to be from anadromous fish and one from a freshwater resident fish. Thus, the remains of anadromous O. mykiss and O. tshawytscha were identified in archaeological deposits predating construction of the Copco I dam in the Upper Klamath Basin While the genetic and geochemical analyses confirm the presence of skeletal remains from anadromous salmonids in the Upper Klamath Basin archaeological sites prior to dam construction these remains may, represent fish caught elsewhere and traded in. Two hypotheses address the introduction of these fish remains into pre-dam archaeological deposits, either they were traded/transported in from elsewhere (Trade/Transport Hypothesis) or they were caught locally (Local Catch Hypothesis). Expectations linked to each of these hypotheses were generated using ethnographic information from across the Pacific Northwest, including modern testimony from the Klamath Basin. Fish heads were often removed soon after capture in order to reduce spoilage of the rest of the fish. Thus, assemblages with many head parts are probably the result of local catch while those without head parts are probably the result of trade and/or transport. Two approaches were used to estimate the extent to which fish heads were deposited in sites. Basic proportions of cranial to post cranial remains from two sites provided a varied picture and did not readily support either the Local Catch or Trade/Transport hypotheses. Evaluation using scaled proportions based on frequency of skeletal elements within the body (Minimum Animal Units) show that four of the five assemblages were dominated by cranial remains and therefore suggest these fish were locally caught. Small samples sizes make it difficult to rigorously evaluate the hypotheses, though the dominance of cranial remains suggests salmonids were taken locally. Together these data indicate that anadromous O. tshawytscha and O. mykiss were taken from waters within the Upper Klamath Basin prior to the construction of Copco I. This study has provided accurate and reliable data, using a novel approach, on which restoration efforts in the region can rely for proper species reintroduction and habitat restoration efforts. Title: Using Archaeological Fish Remains to Determine the Native Status of Anadromous Salmonids in the Upper Klamath Basin (Oregon, USA) Through mtDNA and Geochemical Analysis Author: Stevenson, Alexander E. Year: 2011 Within the Upper Klamath Basin, Oregon, the native status of anadromous salmonids (Oncorhynchus spp.) has been a long standing question. Ongoing efforts to establish if these fish were native to the region prior to the construction of the Copco I Dam on the Klamath River (c.1917) have relied on sparse, contradictory and sometimes unreliable historic documentation and informant testimony. Current restoration projects with very high financial and social costs necessitate accurate and reliable data on salmonid species which once called the region home. Often, archaeolofaunal remains present a novel way to determine species present in an area prior to major habitat losses. This project analyzed fish remains from five previously excavated archaeological sites within the Upper Klamath Basin to determine which salmonid species were present prior to dam construction. A total of 5,859 fish remains were identified to at least taxonomic order using morphological distinctions. Site collections were dominated by those of catostomids (suckers) and cyprinids (minnows). Archaeological deposits at these sites dated as far back as approximately 7,500 BP but were primarily from the last 2,000 years. Only eighty-one salmonid remains were observed within the sites included in this project. The low frequency of salmonid remains in these sites may be the result of cultural and/or natural processes such as density mediated attrition and archaeological sampling. Of these 81 specimens, 38 were subjected to mtDNA analysis for species identification. Seven specimens did not yield DNA sufficient for species identification, six specimens were identified as O. tshawytscha (Chinook) and the remaining 25 specimens were identified as O. mykiss (steelhead or redband trout). Geochemical analysis was used to determine the life history of the fish represented by the remains within these collections. Strontium Calcium (Sr:Ca) ratios were measured on twenty-eight specimens. Three specimens were determined to be from freshwater resident fish and 25 were determined to be from anadromous fish. The specimens which were genetically identified as O. tshawytscha were all determined to be anadromous. Of the 18 specimens which were identified as O. mykiss and were subjected to geochemical analysis two were from freshwater resident fish and sixteen were from anadromous fish. Four samples were not characterized genetically but were subjected to geochemical analysis; three of these were determined to be from anadromous fish and one from a freshwater resident fish. Thus, the remains of anadromous O. mykiss and O. tshawytscha were identified in archaeological deposits predating construction of the Copco I dam in the Upper Klamath Basin While the genetic and geochemical analyses confirm the presence of skeletal remains from anadromous salmonids in the Upper Klamath Basin archaeological sites prior to dam construction these remains may, represent fish caught elsewhere and traded in. Two hypotheses address the introduction of these fish remains into pre-dam archaeological deposits, either they were traded/transported in from elsewhere (Trade/Transport Hypothesis) or they were caught locally (Local Catch Hypothesis). Expectations linked to each of these hypotheses were generated using ethnographic information from across the Pacific Northwest, including modern testimony from the Klamath Basin. Fish heads were often removed soon after capture in order to reduce spoilage of the rest of the fish. Thus, assemblages with many head parts are probably the result of local catch while those without head parts are probably the result of trade and/or transport. Two approaches were used to estimate the extent to which fish heads were deposited in sites. Basic proportions of cranial to post cranial remains from two sites provided a varied picture and did not readily support either the Local Catch or Trade/Transport hypotheses. Evaluation using scaled proportions based on frequency of skeletal elements within the body (Minimum Animal Units) show that four of the five assemblages were dominated by cranial remains and therefore suggest these fish were locally caught. Small samples sizes make it difficult to rigorously evaluate the hypotheses, though the dominance of cranial remains suggests salmonids were taken locally. Together these data indicate that anadromous O. tshawytscha and O. mykiss were taken from waters within the Upper Klamath Basin prior to the construction of Copco I. This study has provided accurate and reliable data, using a novel approach, on which restoration efforts in the region can rely for proper species reintroduction and habitat restoration efforts. Close

• 68. [Article] Connecting Habitat Across Roads: Field Testing Mitigation Strategies for Reducing Road Mortality of an Imperiled Butterfly

  Roads impact wildlife in a variety of ways including fragmentation of populations, reduced access to habitat, and direct mortality from vehicle strikes. Such road effects likely impact the Oregon silverspot ...

  Citation × Citation Citation Abstract Copy Title: Connecting Habitat Across Roads: Field Testing Mitigation Strategies for Reducing Road Mortality of an Imperiled Butterfly Author: Littlejohn, Rebecca Jalene Year: 2012 Roads impact wildlife in a variety of ways including fragmentation of populations, reduced access to habitat, and direct mortality from vehicle strikes. Such road effects likely impact the Oregon silverspot butterfly (Speyeria zerene hippolyta) at one of its few remaining sites. The Rock Creek-Big Creek population of this threatened fritillary butterfly species is bisected by highway 101 on the central Oregon coast. Habitat resources for S. z. hippolyta are found on both the east and west sides of the highway at this site, and vehicle-strikes have been found to cause mortality of some individuals crossing the highway. The 2001 revised Recovery Plan calls out road mortality as a primary threat to S. z. hippolyta and land managers are considering mitigation strategies to reduce this threat on the population. A previous study at Rock Creek- Big Creek prioritized mitigation strategies including mowing of the road sides to decrease flowering plants along the verge and installation of vegetative hedgerows along the highway where the butterflies are crossing to encourage increased flight height over the road. Mowing has taken place over the last two years, but the hedgerows have neither been installed nor tested for effectiveness. This study investigates the effectiveness of hedgerows to increase the flight height of S. z. hippolyta through experimental tests using 3-meter tall nets as "guiding barriers" to mimic vegetative hedgerows in the flight path of S. z. hippolyta at another site in Oregon, Mt. Hebo. Mt. Hebo was chosen because of the stable population of S. z. hippolyta that is found there, the low risk of mortality for individual butterflies during the course of the study, and consistent use of a corridor by S. z. hippolyta. Treatments were designed to mimic a flight path in which a butterfly encounters a "road" of a width simulating that of highway 101 with 3-meter guiding barriers on either side. Based on previous research observations, it was hypothesized that S. z. hippolytaindividuals would fly over the guiding barriers at an increased "safe" flight height such that they would fly over traffic height. Results of the experimental study indicated that a 3-meter guiding barrier in the flight path of S. z. hippolyta did not significantly increase the flight height of individuals. None of the individuals observed flew at a safe flight height over the road (>3 meters). Further, S. z. hippolyta individuals landed on the road surface more often when there was a guiding barrier in the flight path. These results suggest that while S. z. hippolyta individuals are able to fly over guiding barriers in their path at heights of 3 meters or more, there is no evidence to suggest that these structures will influence flight height over highway 101 such that road mortality is reduced. Additionally, this study investigated the known butterfly crossing points at Rock Creek-Big Creek to test the hypothesis that S. z. hippolyta individuals are crossing at points of lower vegetation adjacent to the road. Using data from previous studies, ten crossing points were mapped at this site. Light detection and ranging data (LiDAR) was used to derive vegetation height along highway 101 and analyzed between known crossing points and random points within the Rock Creek-Big Creek area in addition to resource density of the larval host plant (Viola adunca) within the meadows. Statistical analysis indicated that the butterflies were generally crossing at points along the highway with significantly lower vegetation adjacent to the road. Visual analysis indicated that the butterflies were also generally crossing between areas of densely located V. adunca. Additional spatial data is needed to do further path-analysis of S. z. hippolyta individuals. Title: Connecting Habitat Across Roads: Field Testing Mitigation Strategies for Reducing Road Mortality of an Imperiled Butterfly Author: Littlejohn, Rebecca Jalene Year: 2012 Roads impact wildlife in a variety of ways including fragmentation of populations, reduced access to habitat, and direct mortality from vehicle strikes. Such road effects likely impact the Oregon silverspot butterfly (Speyeria zerene hippolyta) at one of its few remaining sites. The Rock Creek-Big Creek population of this threatened fritillary butterfly species is bisected by highway 101 on the central Oregon coast. Habitat resources for S. z. hippolyta are found on both the east and west sides of the highway at this site, and vehicle-strikes have been found to cause mortality of some individuals crossing the highway. The 2001 revised Recovery Plan calls out road mortality as a primary threat to S. z. hippolyta and land managers are considering mitigation strategies to reduce this threat on the population. A previous study at Rock Creek- Big Creek prioritized mitigation strategies including mowing of the road sides to decrease flowering plants along the verge and installation of vegetative hedgerows along the highway where the butterflies are crossing to encourage increased flight height over the road. Mowing has taken place over the last two years, but the hedgerows have neither been installed nor tested for effectiveness. This study investigates the effectiveness of hedgerows to increase the flight height of S. z. hippolyta through experimental tests using 3-meter tall nets as "guiding barriers" to mimic vegetative hedgerows in the flight path of S. z. hippolyta at another site in Oregon, Mt. Hebo. Mt. Hebo was chosen because of the stable population of S. z. hippolyta that is found there, the low risk of mortality for individual butterflies during the course of the study, and consistent use of a corridor by S. z. hippolyta. Treatments were designed to mimic a flight path in which a butterfly encounters a "road" of a width simulating that of highway 101 with 3-meter guiding barriers on either side. Based on previous research observations, it was hypothesized that S. z. hippolytaindividuals would fly over the guiding barriers at an increased "safe" flight height such that they would fly over traffic height. Results of the experimental study indicated that a 3-meter guiding barrier in the flight path of S. z. hippolyta did not significantly increase the flight height of individuals. None of the individuals observed flew at a safe flight height over the road (>3 meters). Further, S. z. hippolyta individuals landed on the road surface more often when there was a guiding barrier in the flight path. These results suggest that while S. z. hippolyta individuals are able to fly over guiding barriers in their path at heights of 3 meters or more, there is no evidence to suggest that these structures will influence flight height over highway 101 such that road mortality is reduced. Additionally, this study investigated the known butterfly crossing points at Rock Creek-Big Creek to test the hypothesis that S. z. hippolyta individuals are crossing at points of lower vegetation adjacent to the road. Using data from previous studies, ten crossing points were mapped at this site. Light detection and ranging data (LiDAR) was used to derive vegetation height along highway 101 and analyzed between known crossing points and random points within the Rock Creek-Big Creek area in addition to resource density of the larval host plant (Viola adunca) within the meadows. Statistical analysis indicated that the butterflies were generally crossing at points along the highway with significantly lower vegetation adjacent to the road. Visual analysis indicated that the butterflies were also generally crossing between areas of densely located V. adunca. Additional spatial data is needed to do further path-analysis of S. z. hippolyta individuals. Close

• 69. [Article] Community level impacts associated with the invasion of English ivy (Hedera spp.) in Forest Park: a look at the impacts of ivy on community composition and soil moisture.

  Invasive species degrade ecosystems by altering natural processes and decreasing the abundance and diversity of native flora. Communities with major fluctuations in resource supply allow invasive species ...

  Citation × Citation Citation Abstract Copy Title: Community level impacts associated with the invasion of English ivy (Hedera spp.) in Forest Park: a look at the impacts of ivy on community composition and soil moisture. Author: Copp, Sara Rose Year: 2014 Invasive species degrade ecosystems by altering natural processes and decreasing the abundance and diversity of native flora. Communities with major fluctuations in resource supply allow invasive species to exploit limiting resources making the community prone to invasion. In the Pacific Northwest, urban forests characterized with limited light and seasonally limited soil moisture are being dominated by nonnative English ivy (Hedera spp). Three observational studies were conducted in the Southern end of Forest Park within the Balch Creek Subwatershed in Portland, Oregon in order to understand 1) how English ivy changes over three growing seasons, 2) how the native understory composition responds to English ivy, 3) if the dominance of English ivy reduces soil moisture to neighboring plants, 4) how English ivy and two co-occurring native herbs (Hydrophyllum tenuipes and Vancouveria hexandra) physiologically respond to seasonal changes in soil moisture. Percent cover of the understory community was collected in both 2010 and 2013 growing seasons in 54 plots in order to understand the change in cover over time. Community response and the relationship with soil moisture was analyzed using percent cover of the understory community and associated environmental variables including soil moisture collected in 128 plots during the 2013 field season. Finally, 15 plots with co-occurring Hedera spp, H. tenuipes and V. hexandra were sampled for stomatal conductance, leaf water potential, and associated environmental variables. Results show ivy cover increases on average 14% between 2010 and 2013 while native understory cover increased on average < 1%. Once ivy forms dense cover over 44% there is a reduction of native richness, diversity and herb cover while also an increase in available soil moisture and deciduous canopy cover. There were disparate impacts to different functional groups and between species. As functional group, the herbaceous community was the most impacted by ivy invasion. The shrubs and fern community had a variable response to ivy invasion. Many of the fern and shrub species least impacted by ivy also had associations with high soil moisture and deciduous canopy cover. Finally, data suggests that ivy does not take advantage of seasonally limiting soil moisture to invade the understory community. This study indicates that English ivy is both efficient at water use and may have the ability to obtain water from distant locations throughout the forest. Once established, ivy has the ability to alter the community composition. Ivy removal and habitat restoration are essential in order to maintain and enhance biodiversity in Forest Park. Title: Community level impacts associated with the invasion of English ivy (Hedera spp.) in Forest Park: a look at the impacts of ivy on community composition and soil moisture. Author: Copp, Sara Rose Year: 2014 Invasive species degrade ecosystems by altering natural processes and decreasing the abundance and diversity of native flora. Communities with major fluctuations in resource supply allow invasive species to exploit limiting resources making the community prone to invasion. In the Pacific Northwest, urban forests characterized with limited light and seasonally limited soil moisture are being dominated by nonnative English ivy (Hedera spp). Three observational studies were conducted in the Southern end of Forest Park within the Balch Creek Subwatershed in Portland, Oregon in order to understand 1) how English ivy changes over three growing seasons, 2) how the native understory composition responds to English ivy, 3) if the dominance of English ivy reduces soil moisture to neighboring plants, 4) how English ivy and two co-occurring native herbs (Hydrophyllum tenuipes and Vancouveria hexandra) physiologically respond to seasonal changes in soil moisture. Percent cover of the understory community was collected in both 2010 and 2013 growing seasons in 54 plots in order to understand the change in cover over time. Community response and the relationship with soil moisture was analyzed using percent cover of the understory community and associated environmental variables including soil moisture collected in 128 plots during the 2013 field season. Finally, 15 plots with co-occurring Hedera spp, H. tenuipes and V. hexandra were sampled for stomatal conductance, leaf water potential, and associated environmental variables. Results show ivy cover increases on average 14% between 2010 and 2013 while native understory cover increased on average < 1%. Once ivy forms dense cover over 44% there is a reduction of native richness, diversity and herb cover while also an increase in available soil moisture and deciduous canopy cover. There were disparate impacts to different functional groups and between species. As functional group, the herbaceous community was the most impacted by ivy invasion. The shrubs and fern community had a variable response to ivy invasion. Many of the fern and shrub species least impacted by ivy also had associations with high soil moisture and deciduous canopy cover. Finally, data suggests that ivy does not take advantage of seasonally limiting soil moisture to invade the understory community. This study indicates that English ivy is both efficient at water use and may have the ability to obtain water from distant locations throughout the forest. Once established, ivy has the ability to alter the community composition. Ivy removal and habitat restoration are essential in order to maintain and enhance biodiversity in Forest Park. Close

• 70. [Article] Status of Nutria (Myocastor coypus) Populations in the Pacific Northwest and Development of Associated Control and Management Strategies, with an Emphasis on Metropolitan Habitats

  The nutria (Myocastor coypus) is a semi-aquatic rodent native to South America that was introduced to the Pacific Northwest, USA, in the 1930s. Primary damage categories from this invasive species include ...

  Citation × Citation Citation Abstract Copy Title: Status of Nutria (Myocastor coypus) Populations in the Pacific Northwest and Development of Associated Control and Management Strategies, with an Emphasis on Metropolitan Habitats Author: Sheffels, Trevor Robert Year: 2013 The nutria (Myocastor coypus) is a semi-aquatic rodent native to South America that was introduced to the Pacific Northwest, USA, in the 1930s. Primary damage categories from this invasive species include burrowing and herbivory, resulting in habitat degradation. Nutria have become well-established in metropolitan habitats, and anecdotal information suggests the problem has increased in recent years. However, little regional research on the species has been conducted. The scope of this research, which emphasizes metropolitan habitats, includes three primary foci in relation to nutria populations in the Pacific Northwest: modeling habitat suitability, assessing activity and movement patterns, and identifying and managing negative impacts. Large-scale management of any invasive species requires understanding of the current and potential future population distribution. Cold temperatures have been assumed to be a limiting factor for the geographic distribution of nutria populations, but this assumption had not been explicitly tested. A mechanistic habitat suitability model based on winter temperatures performed well in predicting nutria distribution in the Pacific Northwest and nationally. Regional results suggest nutria currently occupy most accessible suitable habitat. However, coupling the model with future climate change data suggests a much larger suitable habitat zone regionally and nationally in the near future. Management of an invasive species on a local scale requires region-specific information about behavior patterns. Radio-telemetry tracking of local nutria populations in metropolitan habitats suggested higher diurnal activity levels than reported elsewhere. Activity areas were also on the lower end of reported nutria home ranges, suggesting the studied metropolitan wetland sites represent core habitat for nutria in the region. Comparison of two transmitter attachment methods, a neck collar and a tail mount, did not identify a clearly superior attachment method for short-term nutria behavior studies. The presence of nutria in metropolitan habitats in the Pacific Northwest necessitates the need to expand the limited management techniques available for these habitats. Standard Vexar® plastic mesh tubes very effectively mitigated nutria herbivory damage to woody vegetation live stakes planted in a metropolitan habitat restoration site. A recently developed nutria multiple-capture cage trap captured larger nutria and reduced non-target captures compared to a standard cage trap. The design of the multiple-capture trap, however, prevented multiple-capture events because small nutria escaped the trap. This research contributes substantially to previously limited information about nutria in the Pacific Northwest and resulted in several new findings. Climate change modeling provides the first evidence that nutria ranges could expand in the near future. Evaluation of new radio-telemetry methods will benefit future behavior studies. The assessment of new damage prevention tools provides more options for the management of nutria in urban habitats. Management recommendations include creating regional nutria management plans, identifying and targeting priority monitoring regions, finding key stakeholders, focusing on public education, and initiating a pilot control program. Recommendations for research include evaluating effects on native fauna, conducting disease surveys, assessing the extent of damage, continuing habitat suitability analysis, and developing population indices. Title: Status of Nutria (Myocastor coypus) Populations in the Pacific Northwest and Development of Associated Control and Management Strategies, with an Emphasis on Metropolitan Habitats Author: Sheffels, Trevor Robert Year: 2013 The nutria (Myocastor coypus) is a semi-aquatic rodent native to South America that was introduced to the Pacific Northwest, USA, in the 1930s. Primary damage categories from this invasive species include burrowing and herbivory, resulting in habitat degradation. Nutria have become well-established in metropolitan habitats, and anecdotal information suggests the problem has increased in recent years. However, little regional research on the species has been conducted. The scope of this research, which emphasizes metropolitan habitats, includes three primary foci in relation to nutria populations in the Pacific Northwest: modeling habitat suitability, assessing activity and movement patterns, and identifying and managing negative impacts. Large-scale management of any invasive species requires understanding of the current and potential future population distribution. Cold temperatures have been assumed to be a limiting factor for the geographic distribution of nutria populations, but this assumption had not been explicitly tested. A mechanistic habitat suitability model based on winter temperatures performed well in predicting nutria distribution in the Pacific Northwest and nationally. Regional results suggest nutria currently occupy most accessible suitable habitat. However, coupling the model with future climate change data suggests a much larger suitable habitat zone regionally and nationally in the near future. Management of an invasive species on a local scale requires region-specific information about behavior patterns. Radio-telemetry tracking of local nutria populations in metropolitan habitats suggested higher diurnal activity levels than reported elsewhere. Activity areas were also on the lower end of reported nutria home ranges, suggesting the studied metropolitan wetland sites represent core habitat for nutria in the region. Comparison of two transmitter attachment methods, a neck collar and a tail mount, did not identify a clearly superior attachment method for short-term nutria behavior studies. The presence of nutria in metropolitan habitats in the Pacific Northwest necessitates the need to expand the limited management techniques available for these habitats. Standard Vexar® plastic mesh tubes very effectively mitigated nutria herbivory damage to woody vegetation live stakes planted in a metropolitan habitat restoration site. A recently developed nutria multiple-capture cage trap captured larger nutria and reduced non-target captures compared to a standard cage trap. The design of the multiple-capture trap, however, prevented multiple-capture events because small nutria escaped the trap. This research contributes substantially to previously limited information about nutria in the Pacific Northwest and resulted in several new findings. Climate change modeling provides the first evidence that nutria ranges could expand in the near future. Evaluation of new radio-telemetry methods will benefit future behavior studies. The assessment of new damage prevention tools provides more options for the management of nutria in urban habitats. Management recommendations include creating regional nutria management plans, identifying and targeting priority monitoring regions, finding key stakeholders, focusing on public education, and initiating a pilot control program. Recommendations for research include evaluating effects on native fauna, conducting disease surveys, assessing the extent of damage, continuing habitat suitability analysis, and developing population indices. Close

• 71. [Article] Factors affecting the population of raptorial birds on Sauvie Island, Oregon

  This study is an analysis of the various factors affecting the population of raptorial birds on Sauvie Island, Oregon. A census of diurnal and nocturnal raptors was carried out along with an analysis of ...

  Citation × Citation Citation Abstract Copy Title: Factors affecting the population of raptorial birds on Sauvie Island, Oregon Author: Gottfried, Jeffry Year: 1972 This study is an analysis of the various factors affecting the population of raptorial birds on Sauvie Island, Oregon. A census of diurnal and nocturnal raptors was carried out along with an analysis of food habits. Once the major prey species were determined they were censused, and the effects of the land management practices on their numbers was investigated. In addition, 100 randomly selected nest boxes were sampled so as to determine the extent to which raptors were making use of them. Red-tailed hawk and Great Horned Owl nests were located It was found that four diurnal raptors and three nocturnal raptors were present in sizeable numbers on Sauvie during the winter and spring of 1972. In addition here were less common sightings of four diurnal and one nocturnal raptor. The most common food item of raptors in general was the vole, Microtus townsendi, which was later found to be present in extremely high numbers. The common practice of planting fields of grains and the intentional flooding of them (for waterfowl use) was found to be a major factor in the numbers and vulnerability of Microtus townsendi. Ducks were a common food item for all raptorial species during and immediately after duck hunting season, but not at any other time of year which seemed to indicate that the raptors were feeding on carrion or wounded ducks. It was found that Barn Owls (Tyto alba), Screech Owls (Otis asio) and Kestrel (Falco sparvarius) made use of the nest boxes on Sauvie Island. The overlapping of food habits of Sauvie Island raptors was discussed and an attempt was made to reconcile the apparent contradiction to Gause’s Rule. Title: Factors affecting the population of raptorial birds on Sauvie Island, Oregon Author: Gottfried, Jeffry Year: 1972 This study is an analysis of the various factors affecting the population of raptorial birds on Sauvie Island, Oregon. A census of diurnal and nocturnal raptors was carried out along with an analysis of food habits. Once the major prey species were determined they were censused, and the effects of the land management practices on their numbers was investigated. In addition, 100 randomly selected nest boxes were sampled so as to determine the extent to which raptors were making use of them. Red-tailed hawk and Great Horned Owl nests were located It was found that four diurnal raptors and three nocturnal raptors were present in sizeable numbers on Sauvie during the winter and spring of 1972. In addition here were less common sightings of four diurnal and one nocturnal raptor. The most common food item of raptors in general was the vole, Microtus townsendi, which was later found to be present in extremely high numbers. The common practice of planting fields of grains and the intentional flooding of them (for waterfowl use) was found to be a major factor in the numbers and vulnerability of Microtus townsendi. Ducks were a common food item for all raptorial species during and immediately after duck hunting season, but not at any other time of year which seemed to indicate that the raptors were feeding on carrion or wounded ducks. It was found that Barn Owls (Tyto alba), Screech Owls (Otis asio) and Kestrel (Falco sparvarius) made use of the nest boxes on Sauvie Island. The overlapping of food habits of Sauvie Island raptors was discussed and an attempt was made to reconcile the apparent contradiction to Gause’s Rule. Close

• 72. [Article] Measuring and Managing Resistance and Resilience Under Climate Change in Northern Great Lake Forests (USA)

  Context: Climate change will have diverse and interacting effects on forests over the next century. One of the most pronounced effects may be a decline in resistance to chronic change and resilience to ...

  Citation × Citation Citation Abstract Copy Title: Measuring and Managing Resistance and Resilience Under Climate Change in Northern Great Lake Forests (USA) Author: Duveneck, Matthew Joshua, Scheller, Robert M. Year: 2016 Context: Climate change will have diverse and interacting effects on forests over the next century. One of the most pronounced effects may be a decline in resistance to chronic change and resilience to acute disturbances. The capacity for forests to persist and/or adapt to climate change remains largely unknown, in part because there is not broad agreement how to measure and apply resilience concepts. Objectives: We assessed the interactions of climate change, resistance, resilience, diversity, and alternative management of northern Great Lake forests. Methods: We simulated two landscapes (northern Minnesota and northern lower Michigan), three climate futures (current climate, a low emissions trajectory, and a high emissions trajectory), and four management regimes [business as usual, expanded forest reserves, modified silviculture, and climate suitable planting (CSP)]. We simulated each scenario with a forest landscape simulation model. We assessed resistance as the change in species composition over time. We assessed resilience and calculated an index of resilience that incorporated both recovery of pre-fire tree species composition and aboveground biomass within simulated burned areas. Results: Results indicate a positive relationship between diversity and resistance within low diversity areas. Simulations of the high emission climate future resulted in a decline in both resistance and resilience. Conclusions: Of the management regimes, the CSP regime resulted in some of the greatest resilience under climate change although our results suggest that differences in forest management are largely outweighed by the effects of climate change. Our results provide a framework for assessing resistance and resilience relevant and valuable to a broad array of ecological systems. Title: Measuring and Managing Resistance and Resilience Under Climate Change in Northern Great Lake Forests (USA) Author: Duveneck, Matthew Joshua, Scheller, Robert M. Year: 2016 Context: Climate change will have diverse and interacting effects on forests over the next century. One of the most pronounced effects may be a decline in resistance to chronic change and resilience to acute disturbances. The capacity for forests to persist and/or adapt to climate change remains largely unknown, in part because there is not broad agreement how to measure and apply resilience concepts. Objectives: We assessed the interactions of climate change, resistance, resilience, diversity, and alternative management of northern Great Lake forests. Methods: We simulated two landscapes (northern Minnesota and northern lower Michigan), three climate futures (current climate, a low emissions trajectory, and a high emissions trajectory), and four management regimes [business as usual, expanded forest reserves, modified silviculture, and climate suitable planting (CSP)]. We simulated each scenario with a forest landscape simulation model. We assessed resistance as the change in species composition over time. We assessed resilience and calculated an index of resilience that incorporated both recovery of pre-fire tree species composition and aboveground biomass within simulated burned areas. Results: Results indicate a positive relationship between diversity and resistance within low diversity areas. Simulations of the high emission climate future resulted in a decline in both resistance and resilience. Conclusions: Of the management regimes, the CSP regime resulted in some of the greatest resilience under climate change although our results suggest that differences in forest management are largely outweighed by the effects of climate change. Our results provide a framework for assessing resistance and resilience relevant and valuable to a broad array of ecological systems. Close

• 73. [Article] The Impact of Weather on Kingbird Foraging Behavior

  Foraging data on Eastern Kingbirds (Tyrannus tyrannus) were collected during the early breeding season in eastern Kansas to test the hypothesis that foraging rate and other aspects of foraging behavior ...

  Citation × Citation Citation Abstract Copy Title: The Impact of Weather on Kingbird Foraging Behavior Author: Murphy, Michael T. Year: 1987 Foraging data on Eastern Kingbirds (Tyrannus tyrannus) were collected during the early breeding season in eastern Kansas to test the hypothesis that foraging rate and other aspects of foraging behavior vary with weather. Foraging characteristics of five additional kingbird species were also examined to assess Fitzpatrick's (1980) generalization that kingbirds (Tyrannus spp.) are aerial hawking specialists. In Eastern Kingbirds, total foraging rate was independent of air temperature, cloud cover, wind speed, and time of day, but the rate of aerial hawking varied directly with air temperature and inversely with cloud cover (both P < 0.05). Effects of the two variables were additive. The percentage of foraging movements that were aerial hawks also increased with temperature and declined with cloud cover, and, hover-gleaning and perch-to-ground sallying were observed mainly during cloudy weather. Sally (i.e., foraging flight) distance correlated directly with perch height and air temperature, and large insects were captured almost exclusively in long upward or horizontal flights. I interpret these data to indicate that foraging behavior and the capture of large, flying insects depends on weather because of how it affects the activity of insect prey. Foraging data on kingbirds support Fitzpatrick's generalization, but the relative use of aerial hawking varies considerably among species. Resident Tropical Kingbirds( T. melancholicus) are the most specialized foragers, whereas the migrant and widely distributed Eastern Kingbird appears to be the most generalized. Certain habitats also appear to favor the use of particular foraging methods (e.g., outward striking in grasslands and perch-to-ground sallying in drier, open habitats). Title: The Impact of Weather on Kingbird Foraging Behavior Author: Murphy, Michael T. Year: 1987 Foraging data on Eastern Kingbirds (Tyrannus tyrannus) were collected during the early breeding season in eastern Kansas to test the hypothesis that foraging rate and other aspects of foraging behavior vary with weather. Foraging characteristics of five additional kingbird species were also examined to assess Fitzpatrick's (1980) generalization that kingbirds (Tyrannus spp.) are aerial hawking specialists. In Eastern Kingbirds, total foraging rate was independent of air temperature, cloud cover, wind speed, and time of day, but the rate of aerial hawking varied directly with air temperature and inversely with cloud cover (both P < 0.05). Effects of the two variables were additive. The percentage of foraging movements that were aerial hawks also increased with temperature and declined with cloud cover, and, hover-gleaning and perch-to-ground sallying were observed mainly during cloudy weather. Sally (i.e., foraging flight) distance correlated directly with perch height and air temperature, and large insects were captured almost exclusively in long upward or horizontal flights. I interpret these data to indicate that foraging behavior and the capture of large, flying insects depends on weather because of how it affects the activity of insect prey. Foraging data on kingbirds support Fitzpatrick's generalization, but the relative use of aerial hawking varies considerably among species. Resident Tropical Kingbirds( T. melancholicus) are the most specialized foragers, whereas the migrant and widely distributed Eastern Kingbird appears to be the most generalized. Certain habitats also appear to favor the use of particular foraging methods (e.g., outward striking in grasslands and perch-to-ground sallying in drier, open habitats). Close

• 74. [Article] The Effects of Hypoxia and Temperature on Developing Embryos of the Annual Killifish Austrofundulus limnaeus

  Little is known about the physiology or biochemistry of hypoxia (reduced levels of oxygen) tolerance during development in vertebrate embryos. In most species, relatively brief bouts of severe hypoxia ...

  Citation × Citation Citation Abstract Copy Title: The Effects of Hypoxia and Temperature on Developing Embryos of the Annual Killifish Austrofundulus limnaeus Author: Anderson, Skye N. Year: 2012 Little is known about the physiology or biochemistry of hypoxia (reduced levels of oxygen) tolerance during development in vertebrate embryos. In most species, relatively brief bouts of severe hypoxia are lethal or teratogenic. An exception to such hypoxia intolerance is the annual killifish Austrofundulus limnaeus, in which populations persist in hypoxic environments. This species inhabits seasonal ponds in Venezuela, surviving through the dry season in the form of diapausing embryos. Embedded in the pond sediment, embryos of A. limnaeus are routinely exposed to hypoxia and anoxia (lack of oxygen) as part of their normal development. Here, we exposed embryos to various levels of PO2 (21.2, 15.6, 10.8, 8.4, 6.1, 3.6, and 2.2 kPa) at two different temperatures (25°C and 30°C) to study the effects on developmental rate and heart rate. We also measured enzyme activity and quantified DNA content of individual embryos to compare differences among the varying levels of hypoxia and temperature. Hypoxia caused a significant decline in developmental rate and caused a stage-specific decline in heart rate. Higher temperature caused an increase in the developmental rate for those embryos incubated at PO2 of 6.1 kPa and greater. Temperature had a negative effect by hindering development below a PO2 of 6.1 kPa. Total embryonic DNA content was reduced at low partial pressures (15.6, 10.8, 8.4, 6.1, 3.6, and 2.2 kPa) of oxygen. Citrate synthase, lactate dehydrogenase, and phosphoenolpyruvate carboxykinase were all down-regulated indicating a complete lack of enzymatic metabolic compensation to combat reduced oxygen levels. Title: The Effects of Hypoxia and Temperature on Developing Embryos of the Annual Killifish Austrofundulus limnaeus Author: Anderson, Skye N. Year: 2012 Little is known about the physiology or biochemistry of hypoxia (reduced levels of oxygen) tolerance during development in vertebrate embryos. In most species, relatively brief bouts of severe hypoxia are lethal or teratogenic. An exception to such hypoxia intolerance is the annual killifish Austrofundulus limnaeus, in which populations persist in hypoxic environments. This species inhabits seasonal ponds in Venezuela, surviving through the dry season in the form of diapausing embryos. Embedded in the pond sediment, embryos of A. limnaeus are routinely exposed to hypoxia and anoxia (lack of oxygen) as part of their normal development. Here, we exposed embryos to various levels of PO2 (21.2, 15.6, 10.8, 8.4, 6.1, 3.6, and 2.2 kPa) at two different temperatures (25°C and 30°C) to study the effects on developmental rate and heart rate. We also measured enzyme activity and quantified DNA content of individual embryos to compare differences among the varying levels of hypoxia and temperature. Hypoxia caused a significant decline in developmental rate and caused a stage-specific decline in heart rate. Higher temperature caused an increase in the developmental rate for those embryos incubated at PO2 of 6.1 kPa and greater. Temperature had a negative effect by hindering development below a PO2 of 6.1 kPa. Total embryonic DNA content was reduced at low partial pressures (15.6, 10.8, 8.4, 6.1, 3.6, and 2.2 kPa) of oxygen. Citrate synthase, lactate dehydrogenase, and phosphoenolpyruvate carboxykinase were all down-regulated indicating a complete lack of enzymatic metabolic compensation to combat reduced oxygen levels. Close

• 75. [Article] Interactive Physiological Responses of Nile Tilapia to Salinity- and Temperature-induced Stress: Quantifying the Regulation of Apoptosis and Cell Cycle Arrest in Oreochromis Niloticus

  Nile tilapia provide an ideal model to study the accumulation of climate change-induced stressors due to their habitat in tropical freshwater systems that are susceptible to salt water invasion and temperature ...

  Citation × Citation Citation Abstract Copy Title: Interactive Physiological Responses of Nile Tilapia to Salinity- and Temperature-induced Stress: Quantifying the Regulation of Apoptosis and Cell Cycle Arrest in Oreochromis Niloticus Author: McGuire, Charlee Year: 2017 Nile tilapia provide an ideal model to study the accumulation of climate change-induced stressors due to their habitat in tropical freshwater systems that are susceptible to salt water invasion and temperature fluctuation due to sea level rise. This study investigates the physiological responses of Nile tilapia to salinity- and temperature-induced stress to identify the interactive effects of simultaneous stressors on the cell cycle. Proteins indicative of cell cycle activity and arrest were quantified in the tissues of Nile tilapia exposed to various environmental conditions varying by temperature and salinity. Dot Blotting was utilized to measure Gadd45 while Western Blotting was used to confirm the identity of the protein. Results from previous investigations in the Buckley lab were also utilized to compare the expression patterns of Gadd45 to relevant cell activity proteins p53 and PCNA. Of the three proteins under scrutiny, a significant change in expression of p53 was observed for the interaction of salinity- and temperature- induced stress, while full strength saltwater treatment alone was found to have a significant impact on the expression of p53, Gadd45 and PCNA. These findings can be used in collaboration with existing studies to describe the coordination of apoptotic pathways in Nile tilapia and other non-mammalian species, as well as to create policy on how to conserve this important species effectively both in the wild and in fisheries for aquaculture, commercial and public health initiatives in response to global climate change. Title: Interactive Physiological Responses of Nile Tilapia to Salinity- and Temperature-induced Stress: Quantifying the Regulation of Apoptosis and Cell Cycle Arrest in Oreochromis Niloticus Author: McGuire, Charlee Year: 2017 Nile tilapia provide an ideal model to study the accumulation of climate change-induced stressors due to their habitat in tropical freshwater systems that are susceptible to salt water invasion and temperature fluctuation due to sea level rise. This study investigates the physiological responses of Nile tilapia to salinity- and temperature-induced stress to identify the interactive effects of simultaneous stressors on the cell cycle. Proteins indicative of cell cycle activity and arrest were quantified in the tissues of Nile tilapia exposed to various environmental conditions varying by temperature and salinity. Dot Blotting was utilized to measure Gadd45 while Western Blotting was used to confirm the identity of the protein. Results from previous investigations in the Buckley lab were also utilized to compare the expression patterns of Gadd45 to relevant cell activity proteins p53 and PCNA. Of the three proteins under scrutiny, a significant change in expression of p53 was observed for the interaction of salinity- and temperature- induced stress, while full strength saltwater treatment alone was found to have a significant impact on the expression of p53, Gadd45 and PCNA. These findings can be used in collaboration with existing studies to describe the coordination of apoptotic pathways in Nile tilapia and other non-mammalian species, as well as to create policy on how to conserve this important species effectively both in the wild and in fisheries for aquaculture, commercial and public health initiatives in response to global climate change. Close

• 76. [Article] Adsorption to dipalmitoylphosphatidylcholine membranes in gel and fluid state: pentachlorophenolate, dipicrylamine, and tetraphenylborate

  We measured the dependence of electrophoretic mobility of dipalmitoylphosphatidylcholine (DPPC) vesicles on the aqueous concentration of negatively charged ions of pentachlorophenol (PCP), dipicrylamine ...

  Citation × Citation Citation Abstract Copy Title: Adsorption to dipalmitoylphosphatidylcholine membranes in gel and fluid state: pentachlorophenolate, dipicrylamine, and tetraphenylborate Author: Smejtek, Pavel, Wang, S. R. Year: 1990 We measured the dependence of electrophoretic mobility of dipalmitoylphosphatidylcholine (DPPC) vesicles on the aqueous concentration of negatively charged ions of pentachlorophenol (PCP), dipicrylamine (DPA), and tetraphenylborate (TPhB). The objective was to determine how the physical state of hydrocarbon chains of lipids affects adsorption of lipophilic ions. The studies were done at 25 and 42 degrees C to determine adsorption properties of DPPC membrane in the gel and fluid state, respectively. From the analysis of zeta-potential isotherms in terms of Langmuir-Stern-Grahame model we obtained the association constant, K, the area of the adsorption site, Ps, and the linear partition coefficient, beta. Results: K, (x 10(4)M-1): K(gel): PCP (0.49 +/- 0.28), DPA (25 +/- 10), TPhB (31 +/- 10); K(fluid): PCP (4.5 +/- 0.9), DPA (74 +/- 21), TPhB (59 +/- 14); Ps, (nm2): Ps(gel): PCP (5.4 +/- 2.3), DPA (5.9 +/- 2), TPhB (5.0 +/- 1.7); Ps(fluid): PCP (4.5 +/- 0.4), DPA (5.2 +/- 0.4), TPhB (4.1 +/- 0.2); beta, (x 10(-5) m): beta(gel): PCP (0.15 +/- 0.09), DPA (7.1 +/- 0.3), TPhB (10 +/- 7); beta(fluid): PCP (1.7 +/- 0.3), DPA (24 +/- 7), TPhB (24 +/- 6). It was interesting to find that the adsorption site area for PCP, DPA, and TPhB were very similar for both the gel and fluid membranes; also, the areas were independent of the size and molecular structure of the adsorbing species. Using a simple discrete charge model the adsorption site areas for all species were consistent with a dielectric constant of 8–10 and with an ion adsorption depth of 0.4–0.6 nm below the water/dielectric interface. The delta delta G0 = delta G0(gel) - delta G0(fluid) was found to be about twice as large for PCP than for DPA and TPhB. This indicates that PCP will be significantly more adsorbed in the fluid and disordered regions of biomembranes, whereas the distribution of DPA and TPhB is expected to be relatively more even. Title: Adsorption to dipalmitoylphosphatidylcholine membranes in gel and fluid state: pentachlorophenolate, dipicrylamine, and tetraphenylborate Author: Smejtek, Pavel, Wang, S. R. Year: 1990 We measured the dependence of electrophoretic mobility of dipalmitoylphosphatidylcholine (DPPC) vesicles on the aqueous concentration of negatively charged ions of pentachlorophenol (PCP), dipicrylamine (DPA), and tetraphenylborate (TPhB). The objective was to determine how the physical state of hydrocarbon chains of lipids affects adsorption of lipophilic ions. The studies were done at 25 and 42 degrees C to determine adsorption properties of DPPC membrane in the gel and fluid state, respectively. From the analysis of zeta-potential isotherms in terms of Langmuir-Stern-Grahame model we obtained the association constant, K, the area of the adsorption site, Ps, and the linear partition coefficient, beta. Results: K, (x 10(4)M-1): K(gel): PCP (0.49 +/- 0.28), DPA (25 +/- 10), TPhB (31 +/- 10); K(fluid): PCP (4.5 +/- 0.9), DPA (74 +/- 21), TPhB (59 +/- 14); Ps, (nm2): Ps(gel): PCP (5.4 +/- 2.3), DPA (5.9 +/- 2), TPhB (5.0 +/- 1.7); Ps(fluid): PCP (4.5 +/- 0.4), DPA (5.2 +/- 0.4), TPhB (4.1 +/- 0.2); beta, (x 10(-5) m): beta(gel): PCP (0.15 +/- 0.09), DPA (7.1 +/- 0.3), TPhB (10 +/- 7); beta(fluid): PCP (1.7 +/- 0.3), DPA (24 +/- 7), TPhB (24 +/- 6). It was interesting to find that the adsorption site area for PCP, DPA, and TPhB were very similar for both the gel and fluid membranes; also, the areas were independent of the size and molecular structure of the adsorbing species. Using a simple discrete charge model the adsorption site areas for all species were consistent with a dielectric constant of 8–10 and with an ion adsorption depth of 0.4–0.6 nm below the water/dielectric interface. The delta delta G0 = delta G0(gel) - delta G0(fluid) was found to be about twice as large for PCP than for DPA and TPhB. This indicates that PCP will be significantly more adsorbed in the fluid and disordered regions of biomembranes, whereas the distribution of DPA and TPhB is expected to be relatively more even. Close

• 77. [Article] Food Web Impacts of the Invasive New Zealand Mudsnail in an Estuarine System

  Non-indigenous species (hereafter NIS) have long been recognized as adversely affecting habitats they invade. While many of their documented ecological impacts have been to specific species, namely prey, ...

  Citation × Citation Citation Abstract Copy Title: Food Web Impacts of the Invasive New Zealand Mudsnail in an Estuarine System Author: Kelley, Amanda L. Year: 2013 Non-indigenous species (hereafter NIS) have long been recognized as adversely affecting habitats they invade. While many of their documented ecological impacts have been to specific species, namely prey, they may impact whole food webs. Both vertebrate and invertebrate NIS have been present in the Columbia River since the mid 1800’s. The New Zealand mudsnail, (Potamopyrgus antipodarum, hereafter NZMS) was first reported in the Columbia River Estuary in 1995. This typically freshwater NIS invaded Youngs Bay, a shallow embayment within the Columbia River estuary system, and has proliferated within this benthic community. To date, there have been no inquiries into the impact of NZMS on the food web in a brackish water estuary within the United States. To identify community-level impacts by the invasive NZMS, an ecological census of the benthic communities of Youngs and Cathlamet Bays (reference site) was conducted, including comprehensive sampling of vertebrates and benthic invertebrates from these two brackish water systems. Stable isotope analysis (SIA) from these two systems is being utilized to identify trophic level food web relationships. 50% of one common estuarine fish, the Pacific staghorn sculpin (Leptocottus armatus) were found to contain NZMS in their guts. Furthermore, I have found densities reaching 15,711 snails/m² sampled. These results indicate NZMS in Youngs Bay may affect higher trophic levels. Faculty Mentors: Valance Brenneis and Catherine deRivera Title: Food Web Impacts of the Invasive New Zealand Mudsnail in an Estuarine System Author: Kelley, Amanda L. Year: 2013 Non-indigenous species (hereafter NIS) have long been recognized as adversely affecting habitats they invade. While many of their documented ecological impacts have been to specific species, namely prey, they may impact whole food webs. Both vertebrate and invertebrate NIS have been present in the Columbia River since the mid 1800’s. The New Zealand mudsnail, (Potamopyrgus antipodarum, hereafter NZMS) was first reported in the Columbia River Estuary in 1995. This typically freshwater NIS invaded Youngs Bay, a shallow embayment within the Columbia River estuary system, and has proliferated within this benthic community. To date, there have been no inquiries into the impact of NZMS on the food web in a brackish water estuary within the United States. To identify community-level impacts by the invasive NZMS, an ecological census of the benthic communities of Youngs and Cathlamet Bays (reference site) was conducted, including comprehensive sampling of vertebrates and benthic invertebrates from these two brackish water systems. Stable isotope analysis (SIA) from these two systems is being utilized to identify trophic level food web relationships. 50% of one common estuarine fish, the Pacific staghorn sculpin (Leptocottus armatus) were found to contain NZMS in their guts. Furthermore, I have found densities reaching 15,711 snails/m² sampled. These results indicate NZMS in Youngs Bay may affect higher trophic levels. Faculty Mentors: Valance Brenneis and Catherine deRivera Close

• 78. [Article] Mitochondrial Physiology of Diapausing and Developing Embryos of the Annual Killifsh Austrofundulus Limnaeus: Implications for Extreme Anoxia Tolerance

  Diapausing embryos of the annual killiWsh Austrofundulus limnaeus have the highest reported anoxia tolerance of any vertebrate and previous studies indicate modified mitochondrial physiology likely supports ...

  Citation × Citation Citation Abstract Copy Title: Mitochondrial Physiology of Diapausing and Developing Embryos of the Annual Killifsh Austrofundulus Limnaeus: Implications for Extreme Anoxia Tolerance Author: Duerr, Jeffrey M., Podrabsky, Jason E. Year: 2010 Diapausing embryos of the annual killiWsh Austrofundulus limnaeus have the highest reported anoxia tolerance of any vertebrate and previous studies indicate modified mitochondrial physiology likely supports anoxic metabolism. Functional mitochondria isolated from diapausing and developing embryos of the annual killifish exhibited VO2, respiratory control ratios (RCR), and P:O ratios consistent with those obtained from other ectothermic vertebrate species. Reduced oxygen consumption associated with dormancy in whole animal respiration rates are correlated with maximal respiration rates of mitochondria isolated from diapausing versus developing embryos. P:O ratios for developing embryos were similar to those obtained from adult liver, but were diminished in mitochondria from diapausing embryos suggesting decreased oxidative efficiency. Proton leak in adult liver corresponded with that of developing embryos but was elevated in mitochondria isolated from diapausing embryos. In metabolically suppressed diapause II embryos, over 95% of the mitochondrial oxygen consumption is accounted for by proton leak across the inner mitochondrial membrane. Decreased activity of mitochondrial respiratory chain complexes correlates with diminished oxidative capacity of isolated mitochondria, especially during diapause. Respiratory complexes exhibited suppressed activity in mitochondria with the ATP synthase exhibiting the greatest inhibition during diapause II. Mitochondria isolated from diapause II embryos are not poised to produce ATP, but rather to shuttle carbon and electrons through the Kreb’s cycle while minimizing the generation of a proton motive force. This particular mitochondrial physiology is likely a mechanism to avoid production of reactive oxygen species during large-scale changes in flux through oxidative phosphorylation pathways associated with metabolic transitions into and out of dormancy and anoxia. Title: Mitochondrial Physiology of Diapausing and Developing Embryos of the Annual Killifsh Austrofundulus Limnaeus: Implications for Extreme Anoxia Tolerance Author: Duerr, Jeffrey M., Podrabsky, Jason E. Year: 2010 Diapausing embryos of the annual killiWsh Austrofundulus limnaeus have the highest reported anoxia tolerance of any vertebrate and previous studies indicate modified mitochondrial physiology likely supports anoxic metabolism. Functional mitochondria isolated from diapausing and developing embryos of the annual killifish exhibited VO2, respiratory control ratios (RCR), and P:O ratios consistent with those obtained from other ectothermic vertebrate species. Reduced oxygen consumption associated with dormancy in whole animal respiration rates are correlated with maximal respiration rates of mitochondria isolated from diapausing versus developing embryos. P:O ratios for developing embryos were similar to those obtained from adult liver, but were diminished in mitochondria from diapausing embryos suggesting decreased oxidative efficiency. Proton leak in adult liver corresponded with that of developing embryos but was elevated in mitochondria isolated from diapausing embryos. In metabolically suppressed diapause II embryos, over 95% of the mitochondrial oxygen consumption is accounted for by proton leak across the inner mitochondrial membrane. Decreased activity of mitochondrial respiratory chain complexes correlates with diminished oxidative capacity of isolated mitochondria, especially during diapause. Respiratory complexes exhibited suppressed activity in mitochondria with the ATP synthase exhibiting the greatest inhibition during diapause II. Mitochondria isolated from diapause II embryos are not poised to produce ATP, but rather to shuttle carbon and electrons through the Kreb’s cycle while minimizing the generation of a proton motive force. This particular mitochondrial physiology is likely a mechanism to avoid production of reactive oxygen species during large-scale changes in flux through oxidative phosphorylation pathways associated with metabolic transitions into and out of dormancy and anoxia. Close

• 79. [Article] Biostratigraphy of the Type Yamhill Formation, Polk County, Oregon

  One hundred and seventy-four species and varieties of fossil Foraminifera are recorded from thirty-eight localities in the Siletz River Volcanics, Yamhill and Nestucca Formations exposed along Mill and ...

  Citation × Citation Citation Abstract Copy Title: Biostratigraphy of the Type Yamhill Formation, Polk County, Oregon Author: Gaston, Larry R. Year: 1974 One hundred and seventy-four species and varieties of fossil Foraminifera are recorded from thirty-eight localities in the Siletz River Volcanics, Yamhill and Nestucca Formations exposed along Mill and Gooseneck Creeks, in the Northern Coast Range of Oregon. Marginulina holmesi is described as new. The Foraminifera indicate that this sequence was deposited during late Ulatisian and Narizian time, in marine waters at bathyal or lower neritic depths, with cool surface temperatures. The Yamhill Formation can be correlated with Moody Shale member of the Toledo Formation and the Coaledo Formation of Oregon; the McIntosh and Aldwell Formations of Washington; and the upper part of the Canoas siltstone member of the Kreyenhagen Formation and the Alhambra Formation of California. It is proposed to modify, in part, the type section of the Yamhill Formation. Approximately 2.2 miles of the section, south of the Yamhill River Fault, are excluded from the original type area. Biostratigraphic studies of foraminiferal faunae from adjacent sides of the Yamhill River Fault suggest only minor vertical displacement. Title: Biostratigraphy of the Type Yamhill Formation, Polk County, Oregon Author: Gaston, Larry R. Year: 1974 One hundred and seventy-four species and varieties of fossil Foraminifera are recorded from thirty-eight localities in the Siletz River Volcanics, Yamhill and Nestucca Formations exposed along Mill and Gooseneck Creeks, in the Northern Coast Range of Oregon. Marginulina holmesi is described as new. The Foraminifera indicate that this sequence was deposited during late Ulatisian and Narizian time, in marine waters at bathyal or lower neritic depths, with cool surface temperatures. The Yamhill Formation can be correlated with Moody Shale member of the Toledo Formation and the Coaledo Formation of Oregon; the McIntosh and Aldwell Formations of Washington; and the upper part of the Canoas siltstone member of the Kreyenhagen Formation and the Alhambra Formation of California. It is proposed to modify, in part, the type section of the Yamhill Formation. Approximately 2.2 miles of the section, south of the Yamhill River Fault, are excluded from the original type area. Biostratigraphic studies of foraminiferal faunae from adjacent sides of the Yamhill River Fault suggest only minor vertical displacement. Close

• 80. [Article] Post-occupancy Evaluation at the Zoo: Behavioral and Hormonal Indicators of Welfare in Orangutans (Pongo pygmaeus abelii)

  An increased understanding of species-specific behavioral needs has lead zoos to focus on providing more naturalistic and stimulating environments. Scientific assessments of how changes in habitat affect ...

  Citation × Citation Citation Abstract Copy Title: Post-occupancy Evaluation at the Zoo: Behavioral and Hormonal Indicators of Welfare in Orangutans (Pongo pygmaeus abelii) Author: Tingey, Leigha Year: 2012 An increased understanding of species-specific behavioral needs has lead zoos to focus on providing more naturalistic and stimulating environments. Scientific assessments of how changes in habitat affect animal behavior are necessary in improving overall animal welfare. This study examined the move of three orangutans housed at the Oregon Zoo into a new and innovative exhibit. Post-occupancy evaluation (POE), which offers systematic information regarding the success or failure of the built environment (Maple & Finlay, 1987), was utilized to effectively evaluate the results of the move. The collection of behavioral data and adrenal activity monitoring through collection of non-invasive saliva, urine and hair provided a comprehensive methodology for comparing changes in behavior and physiological functioning. Behavioral results showed that following the move to the new enclosure animals spent less time inactive, more time at higher elevations and utilized exhibit structures at a greater frequency. Hormonal results suggest that detection of cortisol in orangutan hair could be a useful tool for monitoring chronic stress. Title: Post-occupancy Evaluation at the Zoo: Behavioral and Hormonal Indicators of Welfare in Orangutans (Pongo pygmaeus abelii) Author: Tingey, Leigha Year: 2012 An increased understanding of species-specific behavioral needs has lead zoos to focus on providing more naturalistic and stimulating environments. Scientific assessments of how changes in habitat affect animal behavior are necessary in improving overall animal welfare. This study examined the move of three orangutans housed at the Oregon Zoo into a new and innovative exhibit. Post-occupancy evaluation (POE), which offers systematic information regarding the success or failure of the built environment (Maple & Finlay, 1987), was utilized to effectively evaluate the results of the move. The collection of behavioral data and adrenal activity monitoring through collection of non-invasive saliva, urine and hair provided a comprehensive methodology for comparing changes in behavior and physiological functioning. Behavioral results showed that following the move to the new enclosure animals spent less time inactive, more time at higher elevations and utilized exhibit structures at a greater frequency. Hormonal results suggest that detection of cortisol in orangutan hair could be a useful tool for monitoring chronic stress. Close

• 81. [Article] Design and Synthesis of Novel Chloroquine-based Antimalarials

  Malaria is an infectious, often fatal disease that afflicts nearly 200 million people every year. The disease, characterized by recurring and extreme flu-like symptoms, is caused by the protozoan parasite ...

  Citation × Citation Citation Abstract Copy Title: Design and Synthesis of Novel Chloroquine-based Antimalarials Author: Murphy, Kevin Vincent Year: 2015 Malaria is an infectious, often fatal disease that afflicts nearly 200 million people every year. The disease, characterized by recurring and extreme flu-like symptoms, is caused by the protozoan parasite Plasmodium falciparum. Victims usually contract the disease through a mosquito vector. Chloroquine is a chemotherapeutic that was introduced in the 1940s. For many years the drug was the foremost treatment of malaria, being effective and producing few side effects. Unfortunately, tolerance to chloroquine developed when the parasite evolved a resistance mechanism. Newer drugs have been developed and implemented, but these medicines also show a decreasing effect with continued administration. It is imperative that a new pipeline of drugs be developed in order to combat the disease and anticipated resistance. Reversed chloroquines are a new class of multiple-ligand compounds that are active against chloroquine-sensitive and chloroquine-resistance malaria species. This thesis describes research targeted at the modification of lead reversed chloroquine molecules to discover new and effective moieties, as well as to improve pharmacokinetic-related properties. An especial emphasis of this project is the addition of a sulfonamide functional group to a reversed chloroquine. Preliminary evidence indicates that this is a promising direction for this line of research. Brief discussions of some reversed chloroquine characterization studies are included in appendices. Title: Design and Synthesis of Novel Chloroquine-based Antimalarials Author: Murphy, Kevin Vincent Year: 2015 Malaria is an infectious, often fatal disease that afflicts nearly 200 million people every year. The disease, characterized by recurring and extreme flu-like symptoms, is caused by the protozoan parasite Plasmodium falciparum. Victims usually contract the disease through a mosquito vector. Chloroquine is a chemotherapeutic that was introduced in the 1940s. For many years the drug was the foremost treatment of malaria, being effective and producing few side effects. Unfortunately, tolerance to chloroquine developed when the parasite evolved a resistance mechanism. Newer drugs have been developed and implemented, but these medicines also show a decreasing effect with continued administration. It is imperative that a new pipeline of drugs be developed in order to combat the disease and anticipated resistance. Reversed chloroquines are a new class of multiple-ligand compounds that are active against chloroquine-sensitive and chloroquine-resistance malaria species. This thesis describes research targeted at the modification of lead reversed chloroquine molecules to discover new and effective moieties, as well as to improve pharmacokinetic-related properties. An especial emphasis of this project is the addition of a sulfonamide functional group to a reversed chloroquine. Preliminary evidence indicates that this is a promising direction for this line of research. Brief discussions of some reversed chloroquine characterization studies are included in appendices. Close

• 82. [Article] Mimicking the Bioactivation of the Antitubercular Agent Ethionamide using Peracetic Acid

  Tuberculosis still affects a large number of the world’s population and drug resistance is becoming an increasing problem. Second line of defense antitubercular agents such as ethionamide (ETD) are thus ...

  Citation × Citation Citation Abstract Copy Title: Mimicking the Bioactivation of the Antitubercular Agent Ethionamide using Peracetic Acid Author: Logan, Isabelle E. Year: 2016 Tuberculosis still affects a large number of the world’s population and drug resistance is becoming an increasing problem. Second line of defense antitubercular agents such as ethionamide (ETD) are thus becoming increasingly important. Since ethionamide is a prodrug, its metabolization through oxidation by a monooxygenase was successfully mimicked using peracetic acid. The reaction was found to be biphasic, with a fast initial oxidation to yield ethionamide sulfoxide (ETD-SO), which was relatively stable and was successfully isolated. We derived a bimolecular rate constant of 3.08 ± 0.72 × 102 M-1 s-1 for this initial phase of the reaction. In the slow second phase, further oxidation yielded 2-ethylisonicotinamide, where zero order kinetics were observed. Electrospray ionization mass spectroscopy (ESI-MS) was used to determine the identities of the products. No sulfinic nor sulfonic acids were detected, indicating that the sulfur-carbon bond was cleaved at the sulfenic acid stage, resulting in the release of an unstable sulfur monoxide species, which dimerized in solution to form dithionite. Title: Mimicking the Bioactivation of the Antitubercular Agent Ethionamide using Peracetic Acid Author: Logan, Isabelle E. Year: 2016 Tuberculosis still affects a large number of the world’s population and drug resistance is becoming an increasing problem. Second line of defense antitubercular agents such as ethionamide (ETD) are thus becoming increasingly important. Since ethionamide is a prodrug, its metabolization through oxidation by a monooxygenase was successfully mimicked using peracetic acid. The reaction was found to be biphasic, with a fast initial oxidation to yield ethionamide sulfoxide (ETD-SO), which was relatively stable and was successfully isolated. We derived a bimolecular rate constant of 3.08 ± 0.72 × 102 M-1 s-1 for this initial phase of the reaction. In the slow second phase, further oxidation yielded 2-ethylisonicotinamide, where zero order kinetics were observed. Electrospray ionization mass spectroscopy (ESI-MS) was used to determine the identities of the products. No sulfinic nor sulfonic acids were detected, indicating that the sulfur-carbon bond was cleaved at the sulfenic acid stage, resulting in the release of an unstable sulfur monoxide species, which dimerized in solution to form dithionite. Close

• 83. [Article] Novel Application of Simple Molybdates: Catalytic Hydrolysis of an Organophosphate Neurotoxin Under Mild Aqueous Conditions

  A novel protocol for hydrolyzing phosphonothioate neurotoxins has been developed that uses a readily available, inexpensive and non-toxic molybdate (MoO42−). The target organophosphate is O,S-diethylphenyl ...

  Citation × Citation Citation Abstract Copy Title: Novel Application of Simple Molybdates: Catalytic Hydrolysis of an Organophosphate Neurotoxin Under Mild Aqueous Conditions Author: Kuo, Louis Y., Dill, Kristina M., Shari'ati, Yusef A., Bright, Emily K., McCormick, Theresa Year: 2017 A novel protocol for hydrolyzing phosphonothioate neurotoxins has been developed that uses a readily available, inexpensive and non-toxic molybdate (MoO42−). The target organophosphate is O,S-diethylphenyl phosphonothioate (1), a model compound that has served as an analog of the chemical warfare agent VX. Molybdate-mediated hydrolysis of 1 proceeds at room temperature (pH ∼ 7.5) and yields a relatively safe phosphonate product through P-S specific scission. This is the first report of utilizing the molybdate, MoO42−, to degrade an organophosphate neurotoxin with turnover. A ΔS‡ of −81.5 J/mol·K (−19.5 cal/mol·K) indicates a bimolecular process, and 18O-labeling studies show no oxygen exchange of 1 throughout the hydrolysis by MoO42−(aq). We hypothesize primarily the monomeric molybdate is the active species at pH 7.5 where a SN2(P) mechanism takes place. Density functional theory methods suggest the molybdate oxoanion serves as the nucleophile to attack phosphonothioate 1 to form a molybdate-phosphonate anhydride that subsequently hydrolyzes to the starting molybdate and phenylethyl phosphonate. Title: Novel Application of Simple Molybdates: Catalytic Hydrolysis of an Organophosphate Neurotoxin Under Mild Aqueous Conditions Author: Kuo, Louis Y., Dill, Kristina M., Shari'ati, Yusef A., Bright, Emily K., McCormick, Theresa Year: 2017 A novel protocol for hydrolyzing phosphonothioate neurotoxins has been developed that uses a readily available, inexpensive and non-toxic molybdate (MoO42−). The target organophosphate is O,S-diethylphenyl phosphonothioate (1), a model compound that has served as an analog of the chemical warfare agent VX. Molybdate-mediated hydrolysis of 1 proceeds at room temperature (pH ∼ 7.5) and yields a relatively safe phosphonate product through P-S specific scission. This is the first report of utilizing the molybdate, MoO42−, to degrade an organophosphate neurotoxin with turnover. A ΔS‡ of −81.5 J/mol·K (−19.5 cal/mol·K) indicates a bimolecular process, and 18O-labeling studies show no oxygen exchange of 1 throughout the hydrolysis by MoO42−(aq). We hypothesize primarily the monomeric molybdate is the active species at pH 7.5 where a SN2(P) mechanism takes place. Density functional theory methods suggest the molybdate oxoanion serves as the nucleophile to attack phosphonothioate 1 to form a molybdate-phosphonate anhydride that subsequently hydrolyzes to the starting molybdate and phenylethyl phosphonate. Close

• 84. [Article] Some Aspects of the Ecology of the Virginia Opossum (Didelphis virginiana virginiana Kerr 1792) in an Urban Environment

  Eighty-three Didelphis virginiana from the Portland metropolitan area were collected and studied from December 1974 through May 1976. Males averaged 3394 g, females 2318 g. An annual sex ratio of 68.7:31.3 ...

  Citation × Citation Citation Abstract Copy Title: Some Aspects of the Ecology of the Virginia Opossum (Didelphis virginiana virginiana Kerr 1792) in an Urban Environment Author: Hopkins, David Year: 1976 Eighty-three Didelphis virginiana from the Portland metropolitan area were collected and studied from December 1974 through May 1976. Males averaged 3394 g, females 2318 g. An annual sex ratio of 68.7:31.3 was recorded. Data indicate the possibility of a year-round breeding season and suggest the occurrence of three peaks of reproductive activity: January-February, April-May and October-November. The six primary foods consumed annually are: leaf litter, mammals, gastropods, earthworms, grasses and pet food. Seasonal composition and diversity in the diet is marked. Five new parasite-host records were established. These include mites: Androlaelaps fahrenholsi, Haemogamasus nidi, Eulaelape stabularis tick, Ixodes angustus, and a nematode, Toxocara canis. Both minimum and maximum temperature, and perhaps precipitation to a lesser degree, affect the activity of the species. Nest building by an immature opossum is described. Title: Some Aspects of the Ecology of the Virginia Opossum (Didelphis virginiana virginiana Kerr 1792) in an Urban Environment Author: Hopkins, David Year: 1976 Eighty-three Didelphis virginiana from the Portland metropolitan area were collected and studied from December 1974 through May 1976. Males averaged 3394 g, females 2318 g. An annual sex ratio of 68.7:31.3 was recorded. Data indicate the possibility of a year-round breeding season and suggest the occurrence of three peaks of reproductive activity: January-February, April-May and October-November. The six primary foods consumed annually are: leaf litter, mammals, gastropods, earthworms, grasses and pet food. Seasonal composition and diversity in the diet is marked. Five new parasite-host records were established. These include mites: Androlaelaps fahrenholsi, Haemogamasus nidi, Eulaelape stabularis tick, Ixodes angustus, and a nematode, Toxocara canis. Both minimum and maximum temperature, and perhaps precipitation to a lesser degree, affect the activity of the species. Nest building by an immature opossum is described. Close

• 85. [Article] Spiders fluoresce variably across many taxa

  The evolution of fluorescence is largely unexplored, despite the newfound occurrence of this phenomenon in a variety of organisms. We document that spiders fluoresce under ultraviolet illumination, and ...

  Citation × Citation Citation Abstract Copy Title: Spiders fluoresce variably across many taxa Author: Andrews, Kindra, Reed, Scott M., Masta, Susan E. Year: 2007 The evolution of fluorescence is largely unexplored, despite the newfound occurrence of this phenomenon in a variety of organisms. We document that spiders fluoresce under ultraviolet illumination, and find that the expression of this trait varies greatly among taxa in this species-rich group. All spiders we examined possess fluorophores in their haemolymph, but bright fluorescence appears to result when a spider sequesters fluorophores in its setae or cuticle. By sampling widely across spider taxa, we determine that fluorescent expression is labile and has evolved multiple times. Moreover, examination of the excitation and emission properties of extracted fluorophores reveals that spiders possess multiple fluorophores and that these differ among some families, indicating that novel fluorophores have evolved during spider diversification. Because many spiders fluoresce in wavelengths visible to their predators and prey (birds and insects), we propose that natural selection imposed by predator-prey interactions may drive the evolution of fluorescence in spiders. Title: Spiders fluoresce variably across many taxa Author: Andrews, Kindra, Reed, Scott M., Masta, Susan E. Year: 2007 The evolution of fluorescence is largely unexplored, despite the newfound occurrence of this phenomenon in a variety of organisms. We document that spiders fluoresce under ultraviolet illumination, and find that the expression of this trait varies greatly among taxa in this species-rich group. All spiders we examined possess fluorophores in their haemolymph, but bright fluorescence appears to result when a spider sequesters fluorophores in its setae or cuticle. By sampling widely across spider taxa, we determine that fluorescent expression is labile and has evolved multiple times. Moreover, examination of the excitation and emission properties of extracted fluorophores reveals that spiders possess multiple fluorophores and that these differ among some families, indicating that novel fluorophores have evolved during spider diversification. Because many spiders fluoresce in wavelengths visible to their predators and prey (birds and insects), we propose that natural selection imposed by predator-prey interactions may drive the evolution of fluorescence in spiders. Close

• 86. [Article] Green Roofs Support a Wide Diversity of Collembola in Urban Portland, Oregon

  Green roofs can help address habitat loss in urban areas by supporting plant and animal communities. To determine whether green roofs can support collembola biodiversity, we collected pitfall samples from ...

  Citation × Citation Citation Abstract Copy Title: Green Roofs Support a Wide Diversity of Collembola in Urban Portland, Oregon Author: Miziolek, Konrad Year: 2015 Green roofs can help address habitat loss in urban areas by supporting plant and animal communities. To determine whether green roofs can support collembola biodiversity, we collected pitfall samples from April-June 2015 on two extensive and two intensive green roofs in urban Portland, Oregon. Twenty morphospecies were found across the roofs, indicating that green roofs support a diversity of collembola taxa. The intensive roofs were more biodiverse than the extensive, though roof type may not be the most significant factor affecting collembolan biodiversity. Each of the four green roofs were characterized by a different and unique most dominant morphospecies, and, indeed, each roof possessed a different set of top-three abundant collembola taxa. While green roofs support moderate collembola diversity, preserving natural habitat is important to maintain species richness. Title: Green Roofs Support a Wide Diversity of Collembola in Urban Portland, Oregon Author: Miziolek, Konrad Year: 2015 Green roofs can help address habitat loss in urban areas by supporting plant and animal communities. To determine whether green roofs can support collembola biodiversity, we collected pitfall samples from April-June 2015 on two extensive and two intensive green roofs in urban Portland, Oregon. Twenty morphospecies were found across the roofs, indicating that green roofs support a diversity of collembola taxa. The intensive roofs were more biodiverse than the extensive, though roof type may not be the most significant factor affecting collembolan biodiversity. Each of the four green roofs were characterized by a different and unique most dominant morphospecies, and, indeed, each roof possessed a different set of top-three abundant collembola taxa. While green roofs support moderate collembola diversity, preserving natural habitat is important to maintain species richness. Close

• 87. [Article] A Coxiella-Like Endosymbiont Is a PotentialVitamin Source for the Lone Star Tick

  Amblyomma americanum (Lone star tick) is an important disease vector in the United States. It transmits several human pathogens, including the agents of human monocytic ehrlichiosis, tularemia, and southern ...

  Citation × Citation Citation Abstract Copy Title: A Coxiella-Like Endosymbiont Is a PotentialVitamin Source for the Lone Star Tick Author: Smith, Todd A., Driscoll, Timothy, Gillespie, Joseph J., Raghavan, Rahul Year: 2015 Amblyomma americanum (Lone star tick) is an important disease vector in the United States. It transmits several human pathogens, including the agents of human monocytic ehrlichiosis, tularemia, and southern tick-associated rash illness. Blood-feeding insects (Class Insecta) depend on bacterial endosymbionts to provide vitamins and cofactors that are scarce in blood. It is unclear how this deficiency is compensated in ticks (Class Arachnida) that feed exclusively on mammalian blood. A bacterium related to Coxiella burnetii, the agent of humanQfever,has been observedpreviously within cells of A. americanum. Eliminating this bacterium (CLEAA, Coxiella-like endosymbiont of A. americanum) with antibiotics reduced tick fecundity, indicating that it is an essential endosymbiont. In an effort to determine its role within this symbiosis, we sequenced the CLEAA genome. While highly reduced (656,901 bp) compared with C. burnetii (1,995,281 bp), the CLEAA genome encodes most major vitamin and cofactor biosynthesis pathways, implicatingCLEAAas a vitamin provisioningendosymbiont. In contrast,CLEAAlacks any recognizable virulencegenes, indicating that it is not a pathogen despite its presence in tick salivary glands. As both C. burnetii and numerous “Coxiella-like bacteria” have been reported from several species of ticks,we determined the evolutionary relationship between the two bacteria. Phylogeny estimation revealed that CLEAA is a close relative of C. burnetii,but was not derived from it. Our results are important for strategies geared toward controlling A. americanum and the pathogens it vectors, and also contribute novel information regarding the metabolic interdependencies of ticks and their nutrient-provisioning endosymbionts. Title: A Coxiella-Like Endosymbiont Is a PotentialVitamin Source for the Lone Star Tick Author: Smith, Todd A., Driscoll, Timothy, Gillespie, Joseph J., Raghavan, Rahul Year: 2015 Amblyomma americanum (Lone star tick) is an important disease vector in the United States. It transmits several human pathogens, including the agents of human monocytic ehrlichiosis, tularemia, and southern tick-associated rash illness. Blood-feeding insects (Class Insecta) depend on bacterial endosymbionts to provide vitamins and cofactors that are scarce in blood. It is unclear how this deficiency is compensated in ticks (Class Arachnida) that feed exclusively on mammalian blood. A bacterium related to Coxiella burnetii, the agent of humanQfever,has been observedpreviously within cells of A. americanum. Eliminating this bacterium (CLEAA, Coxiella-like endosymbiont of A. americanum) with antibiotics reduced tick fecundity, indicating that it is an essential endosymbiont. In an effort to determine its role within this symbiosis, we sequenced the CLEAA genome. While highly reduced (656,901 bp) compared with C. burnetii (1,995,281 bp), the CLEAA genome encodes most major vitamin and cofactor biosynthesis pathways, implicatingCLEAAas a vitamin provisioningendosymbiont. In contrast,CLEAAlacks any recognizable virulencegenes, indicating that it is not a pathogen despite its presence in tick salivary glands. As both C. burnetii and numerous “Coxiella-like bacteria” have been reported from several species of ticks,we determined the evolutionary relationship between the two bacteria. Phylogeny estimation revealed that CLEAA is a close relative of C. burnetii,but was not derived from it. Our results are important for strategies geared toward controlling A. americanum and the pathogens it vectors, and also contribute novel information regarding the metabolic interdependencies of ticks and their nutrient-provisioning endosymbionts. Close

• 88. [Article] Distance and Sex Determine Host Plant Choice by Herbivorous Beetles

  Background: Plants respond to herbivore damage with the release of volatile organic compounds (VOCs). This indirect defense can cause ecological costs when herbivores themselves use VOCs as cues to localize ...

  Citation × Citation Citation Abstract Copy Title: Distance and Sex Determine Host Plant Choice by Herbivorous Beetles Author: Ballhorn, Daniel J., Kautz, Stefanie, Heil, Martin Year: 2013 Background: Plants respond to herbivore damage with the release of volatile organic compounds (VOCs). This indirect defense can cause ecological costs when herbivores themselves use VOCs as cues to localize suitable host plants. Can VOCs reliably indicate food plant quality to herbivores? Methodology: We determined the choice behavior of herbivorous beetles (Chrysomelidae: Gynandrobrotica guerreroensis and Cerotoma ruficornis) when facing lima bean plants (Fabaceae: Phaseolus lunatus) with different cyanogenic potential, which is an important constitutive direct defense. Expression of inducible indirect defenses was experimentally manipulated by jasmonic acid treatment at different concentrations. The long-distance responses of male and female beetles to the resulting induced plant volatiles were investigated in olfactometer and free-flight experiments and compared to the short-distance decisions of the same beetles in feeding trials. Conclusion: Female beetles of both species were repelled by VOCs released from all induced plants independent of the level of induction. In contrast, male beetles were repelled by strongly induced plants, showed no significant differences in choice behavior towards moderately induced plants, but responded positively to VOCs released from little induced plants. Thus, beetle sex and plant VOCs had a significant effect on host searching behavior. By contrast, feeding behavior of both sexes was strongly determined by the cyanogenic potential of leaves, although females again responded more sensitively than males. Apparently, VOCs mainly provide information to these beetles that are not directly related to food quality. Being induced by herbivory and involved in indirect plant defense, such VOCs might indicate the presence of competitors and predators to herbivores. We conclude that plant quality as a food source and finding a potentially enemy-free space is more important for female than for male insect herbivores, whereas the presence of a slightly damaged plant can help males to localize putative mating partners. Title: Distance and Sex Determine Host Plant Choice by Herbivorous Beetles Author: Ballhorn, Daniel J., Kautz, Stefanie, Heil, Martin Year: 2013 Background: Plants respond to herbivore damage with the release of volatile organic compounds (VOCs). This indirect defense can cause ecological costs when herbivores themselves use VOCs as cues to localize suitable host plants. Can VOCs reliably indicate food plant quality to herbivores? Methodology: We determined the choice behavior of herbivorous beetles (Chrysomelidae: Gynandrobrotica guerreroensis and Cerotoma ruficornis) when facing lima bean plants (Fabaceae: Phaseolus lunatus) with different cyanogenic potential, which is an important constitutive direct defense. Expression of inducible indirect defenses was experimentally manipulated by jasmonic acid treatment at different concentrations. The long-distance responses of male and female beetles to the resulting induced plant volatiles were investigated in olfactometer and free-flight experiments and compared to the short-distance decisions of the same beetles in feeding trials. Conclusion: Female beetles of both species were repelled by VOCs released from all induced plants independent of the level of induction. In contrast, male beetles were repelled by strongly induced plants, showed no significant differences in choice behavior towards moderately induced plants, but responded positively to VOCs released from little induced plants. Thus, beetle sex and plant VOCs had a significant effect on host searching behavior. By contrast, feeding behavior of both sexes was strongly determined by the cyanogenic potential of leaves, although females again responded more sensitively than males. Apparently, VOCs mainly provide information to these beetles that are not directly related to food quality. Being induced by herbivory and involved in indirect plant defense, such VOCs might indicate the presence of competitors and predators to herbivores. We conclude that plant quality as a food source and finding a potentially enemy-free space is more important for female than for male insect herbivores, whereas the presence of a slightly damaged plant can help males to localize putative mating partners. Close

• 89. [Article] Site Fidelity, Associations and Long-Term Bonds of Short-Finned Pilot Whales off the Island of Hawai`i

  Short-finned pilot whales (Globicephala macrorhynchus) are the most frequently sighted odontocete in a long-term study in Hawaiʹi (representing 23.8% of all odontocete sightings from directed research ...

  Citation × Citation Citation Abstract Copy Title: Site Fidelity, Associations and Long-Term Bonds of Short-Finned Pilot Whales off the Island of Hawai`i Author: Mahaffy, Sabre D. Year: 2012 Short-finned pilot whales (Globicephala macrorhynchus) are the most frequently sighted odontocete in a long-term study in Hawaiʹi (representing 23.8% of all odontocete sightings from directed research efforts), yet little has been published on this species in Hawaiian waters. Studies elsewhere have suggested that short-finned pilot whales travel in stable mixed-sex groups composed of strongly associated individuals; however temporal analyses of social structure are lacking. To examine site fidelity, association patterns and temporal relationships, I analyzed data from 267 directed research and opportunistic encounters of short-finned pilot whales off the island of Hawai`i from 2003 through 2007. Sightings occurred year-round. Analysis of sighting depths in relation to effort indicated short-finned pilot whales are strongly associated with the island slope, with no sightings in water >2,700m deep despite effort to ~5,000m. Using only good quality photos, I identified 448 distinctive individuals; of these, 305 (68.1%) were seen more than once and 250 (55.8%) were seen in >1 year. Sighting histories varied from 1-29 sightings per individual (median=3) over the course of the study, suggesting only some individuals exhibit high site-fidelity. Degree of residency was assessed using multi-year site fidelity to the study area; individuals seen ≥5 times in ≥3 years were considered core residents (154 individuals) while individuals who fell below these criteria but that were seen more than once were termed residents (150 individuals) and those seen on a single occasion were termed visitors (142 individuals). Only 71.9% of the whales were linked by association into a single social network, suggesting the possibility of multiple populations using the study area. Individuals demonstrated preferential associations and community division was strongly supported by average-linkage hierarchical cluster analysis of the association data. Nine longitudinally-stable social units composed of key individuals (seen together ≥8 times in ≥4 years) and their constant companions (seen together ≥5 times in ≥3 years) were identified (unit membership 5-16, median=10.5; mean unit association index: 0.62-0.90). Qualitative assignment of age and sex classes to unit members indicated some segregation between adult males and female/calf pairs may occur. Temporal analysis using standardized lagged association rates of individuals grouped in the same encounter produced a best-fit model where dyads gradually disassociated over time while individuals grouped in the same day produced a model where dyads remained in association, suggesting companions not documented during an encounter are likely still present in the study area. Differential patterns of residency and site fidelity were unexpected and may be indicative of multiple populations around the main Hawaiian Islands. Additionally, the presence of a core resident population demonstrating strong, long-term site-fidelity and associations off the island of Hawaiʹi may warrant special management considerations. Evidence of fisheries-related injuries in addition to anthropogenic threats such as high levels of commercial and recreational vessel traffic, targeted tourist activities, and commercial and sports troll fisheries indicate that additional research is needed to evaluate potential threats to this island-associated population. Title: Site Fidelity, Associations and Long-Term Bonds of Short-Finned Pilot Whales off the Island of Hawai`i Author: Mahaffy, Sabre D. Year: 2012 Short-finned pilot whales (Globicephala macrorhynchus) are the most frequently sighted odontocete in a long-term study in Hawaiʹi (representing 23.8% of all odontocete sightings from directed research efforts), yet little has been published on this species in Hawaiian waters. Studies elsewhere have suggested that short-finned pilot whales travel in stable mixed-sex groups composed of strongly associated individuals; however temporal analyses of social structure are lacking. To examine site fidelity, association patterns and temporal relationships, I analyzed data from 267 directed research and opportunistic encounters of short-finned pilot whales off the island of Hawai`i from 2003 through 2007. Sightings occurred year-round. Analysis of sighting depths in relation to effort indicated short-finned pilot whales are strongly associated with the island slope, with no sightings in water >2,700m deep despite effort to ~5,000m. Using only good quality photos, I identified 448 distinctive individuals; of these, 305 (68.1%) were seen more than once and 250 (55.8%) were seen in >1 year. Sighting histories varied from 1-29 sightings per individual (median=3) over the course of the study, suggesting only some individuals exhibit high site-fidelity. Degree of residency was assessed using multi-year site fidelity to the study area; individuals seen ≥5 times in ≥3 years were considered core residents (154 individuals) while individuals who fell below these criteria but that were seen more than once were termed residents (150 individuals) and those seen on a single occasion were termed visitors (142 individuals). Only 71.9% of the whales were linked by association into a single social network, suggesting the possibility of multiple populations using the study area. Individuals demonstrated preferential associations and community division was strongly supported by average-linkage hierarchical cluster analysis of the association data. Nine longitudinally-stable social units composed of key individuals (seen together ≥8 times in ≥4 years) and their constant companions (seen together ≥5 times in ≥3 years) were identified (unit membership 5-16, median=10.5; mean unit association index: 0.62-0.90). Qualitative assignment of age and sex classes to unit members indicated some segregation between adult males and female/calf pairs may occur. Temporal analysis using standardized lagged association rates of individuals grouped in the same encounter produced a best-fit model where dyads gradually disassociated over time while individuals grouped in the same day produced a model where dyads remained in association, suggesting companions not documented during an encounter are likely still present in the study area. Differential patterns of residency and site fidelity were unexpected and may be indicative of multiple populations around the main Hawaiian Islands. Additionally, the presence of a core resident population demonstrating strong, long-term site-fidelity and associations off the island of Hawaiʹi may warrant special management considerations. Evidence of fisheries-related injuries in addition to anthropogenic threats such as high levels of commercial and recreational vessel traffic, targeted tourist activities, and commercial and sports troll fisheries indicate that additional research is needed to evaluate potential threats to this island-associated population. Close

• 90. [Article] An Investigation of Urban Mobile Source Aerosol Using Optical Properties Measured by CRDT/N: Diesel Particulate Matter and the Impact of Biodiesel

  Mobile source emissions are a major contributor to global and local air pollution. Governments and regulatory agencies have been increasing the stringency of regulations in the transportation sector for ...

  Citation × Citation Citation Abstract Copy Title: An Investigation of Urban Mobile Source Aerosol Using Optical Properties Measured by CRDT/N: Diesel Particulate Matter and the Impact of Biodiesel Author: Wright, Monica Elizabeth Year: 2012 Mobile source emissions are a major contributor to global and local air pollution. Governments and regulatory agencies have been increasing the stringency of regulations in the transportation sector for the last ten years to help curb transportation sector air pollution. The need for regulations has been emphasized by scientific research on the impacts from ambient pollution, especially research on the effect of particulate matter on human health. The particulate emissions from diesel vehicles, diesel particulate matter (DPM) is considered a known or probable carcinogen in various countries and increased exposure to DPM is linked to increased cardiovascular health problems in humans. The toxicity of vehicle emissions and diesel particulate emissions in particular, in conjunction with an increased awareness of potential petroleum fuel shortages, international conflict over petroleum fuel sources and climate change science, have all contributed to the increase of biodiesel use as an additive to or replacement for petroleum fuel. The goal of this research is to determine how this increased use of biodiesel in the particular emission testing setup impacts urban air quality. To determine if biodiesel use contributes to a health or climate benefit, both the size range and general composition were investigated using a comprehensive comparison of the particulate component of the emissions in real time. The emissions from various biodiesel and diesel mixtures from a common diesel passenger vehicle were measured with a cavity ring-down transmissometer (CRDT) coupled with a condensation particle counter, a SMPS, a nephelometer, NOx, CO, CO2, and O3 measurements. From these data, key emission factors for several biodiesel and diesel fuel mixtures were developed. This approach reduces sampling artifacts and allows for the determination of optical properties, particle number concentration, and size distributions, along with several important gas phase species' concentrations. Findings indicate that biodiesel additions to diesel fuel do not necessarily have an air quality benefit for particulate emissions in this emission testing scenario. The often cited linear decrease in particulate emissions with increasing biodiesel content was not observed. Mixtures with half diesel and half biodiesel tended to have the highest particulate emissions in all size ranges. Mixtures with more than 50% biodiesel had slightly lower calculated mass for light absorbing carbon, but this reduction in mass is most likely a result of a shift in the size of the emission particles to a smaller size range, not a reduction in the total number of particles. Evaluation of the extensive optical properties from this experimental set-up indicates that biodiesel additions to diesel fuel has an impact on emission particle extinction in both visible and near-IR wavelengths. The B99 mixture had the smallest emission factor for extinction at 532 nm and at 1064 nm. For the extinction at 532 nm, the trend was not linear and the emission factor peaked at the B50 mixture. Results from intensive properties indicate that emissions from B5 and B25 mixtures have Ångström exponents close to 1, typical for black carbon emissions. The mixtures with a larger fraction of biodiesel have Ångström exponent values closer to 2, indicating more absorbing organic matter and/or smaller particle size in the emissions. Additional experimental testing should be completed to determine the application of these results and emission factors to other diesel vehicles or types of diesel and biodiesel fuel mixtures. Title: An Investigation of Urban Mobile Source Aerosol Using Optical Properties Measured by CRDT/N: Diesel Particulate Matter and the Impact of Biodiesel Author: Wright, Monica Elizabeth Year: 2012 Mobile source emissions are a major contributor to global and local air pollution. Governments and regulatory agencies have been increasing the stringency of regulations in the transportation sector for the last ten years to help curb transportation sector air pollution. The need for regulations has been emphasized by scientific research on the impacts from ambient pollution, especially research on the effect of particulate matter on human health. The particulate emissions from diesel vehicles, diesel particulate matter (DPM) is considered a known or probable carcinogen in various countries and increased exposure to DPM is linked to increased cardiovascular health problems in humans. The toxicity of vehicle emissions and diesel particulate emissions in particular, in conjunction with an increased awareness of potential petroleum fuel shortages, international conflict over petroleum fuel sources and climate change science, have all contributed to the increase of biodiesel use as an additive to or replacement for petroleum fuel. The goal of this research is to determine how this increased use of biodiesel in the particular emission testing setup impacts urban air quality. To determine if biodiesel use contributes to a health or climate benefit, both the size range and general composition were investigated using a comprehensive comparison of the particulate component of the emissions in real time. The emissions from various biodiesel and diesel mixtures from a common diesel passenger vehicle were measured with a cavity ring-down transmissometer (CRDT) coupled with a condensation particle counter, a SMPS, a nephelometer, NOx, CO, CO2, and O3 measurements. From these data, key emission factors for several biodiesel and diesel fuel mixtures were developed. This approach reduces sampling artifacts and allows for the determination of optical properties, particle number concentration, and size distributions, along with several important gas phase species' concentrations. Findings indicate that biodiesel additions to diesel fuel do not necessarily have an air quality benefit for particulate emissions in this emission testing scenario. The often cited linear decrease in particulate emissions with increasing biodiesel content was not observed. Mixtures with half diesel and half biodiesel tended to have the highest particulate emissions in all size ranges. Mixtures with more than 50% biodiesel had slightly lower calculated mass for light absorbing carbon, but this reduction in mass is most likely a result of a shift in the size of the emission particles to a smaller size range, not a reduction in the total number of particles. Evaluation of the extensive optical properties from this experimental set-up indicates that biodiesel additions to diesel fuel has an impact on emission particle extinction in both visible and near-IR wavelengths. The B99 mixture had the smallest emission factor for extinction at 532 nm and at 1064 nm. For the extinction at 532 nm, the trend was not linear and the emission factor peaked at the B50 mixture. Results from intensive properties indicate that emissions from B5 and B25 mixtures have Ångström exponents close to 1, typical for black carbon emissions. The mixtures with a larger fraction of biodiesel have Ångström exponent values closer to 2, indicating more absorbing organic matter and/or smaller particle size in the emissions. Additional experimental testing should be completed to determine the application of these results and emission factors to other diesel vehicles or types of diesel and biodiesel fuel mixtures. Close

• 91. [Article] Effectiveness of Fuel Treatments for Mitigating Wildfire Risk and Sequestering Forest Carbon: A Case Study in the Lake Tahoe Basin

  Fuel-reduction treatments are used extensively to reduce wildfire risk and restore forest diversity and function. In the near future, increasing regulation of carbon (C) emissions may force forest managers ...

  Citation × Citation Citation Abstract Copy Title: Effectiveness of Fuel Treatments for Mitigating Wildfire Risk and Sequestering Forest Carbon: A Case Study in the Lake Tahoe Basin Author: Loudermilk, E. Louise, Stanton, Alison, Scheller, Robert M., Dilts, Thomas E., Weisberg, Peter J., Skinner, Carl, Yang, Jian Year: 2014 Fuel-reduction treatments are used extensively to reduce wildfire risk and restore forest diversity and function. In the near future, increasing regulation of carbon (C) emissions may force forest managers to balance the use of fuel treatments for reducing wildfire risk against an alternative goal of C sequestration. The objective of this study was to evaluate how long-term fuel treatments mitigate wildfires and affect forest C. For the Lake Tahoe Basin in the central Sierra Nevada, USA, fuel treatment efficiency was explored with a landscape-scale simulation model, LANDIS-II, using five fuel treatment scenarios and two (contemporary and potential future) fire regimes. Treatment scenarios included applying a combination of light (hand) and moderate (mechanical) forest thinning continuously through time and transitioning from these prescriptions to a more mid-seral thinning prescription, both on a 15 and 30 year rotation interval. In the last scenario, fuel treatments were isolated to around the lake shore (nearby urban settlement) to simulate a low investment alternative were future resources may be limited. Results indicated that the forest will remain a C sink regardless of treatment or fire regime simulated, due to the landscape legacy of historic logging. Achievement of a net C gain required decades with intensive treatment and depended on wildfire activity: Fuel treatments were more effective in a more active fire environment, where the interface between wildfires and treatment areas increased and caused net C gain earlier than as compared to our scenarios with less wildfire activity. Fuel treatments were most effective when continuously applied and strategically placed in high ignition areas. Treatment type and re-application interval were less influential at the landscape scale, but had notable effects on species dynamics within management units. Treatments created more diverse forest conditions by shifting dominance patterns to a more mixed conifer system, with a higher proportion of fire-tolerant species. We demonstrated that a small amount of wildfire on the landscape resulted in significant changes in the C pool, and that strategically placed fuel treatments substantially reduced wildfire risk, increased fire resiliency of the forest, and is beneficial for long-term C management. Implications for landscape management included consideration for prioritization of treatment areas and creating ideal re-entry schedules that meet logistic, safety, and conservation goals. In forests with a concentrated wildland urban interface, fuel treatments may be vital for ensuring human welfare and enhancing forest integrity in a fire-prone future. Title: Effectiveness of Fuel Treatments for Mitigating Wildfire Risk and Sequestering Forest Carbon: A Case Study in the Lake Tahoe Basin Author: Loudermilk, E. Louise, Stanton, Alison, Scheller, Robert M., Dilts, Thomas E., Weisberg, Peter J., Skinner, Carl, Yang, Jian Year: 2014 Fuel-reduction treatments are used extensively to reduce wildfire risk and restore forest diversity and function. In the near future, increasing regulation of carbon (C) emissions may force forest managers to balance the use of fuel treatments for reducing wildfire risk against an alternative goal of C sequestration. The objective of this study was to evaluate how long-term fuel treatments mitigate wildfires and affect forest C. For the Lake Tahoe Basin in the central Sierra Nevada, USA, fuel treatment efficiency was explored with a landscape-scale simulation model, LANDIS-II, using five fuel treatment scenarios and two (contemporary and potential future) fire regimes. Treatment scenarios included applying a combination of light (hand) and moderate (mechanical) forest thinning continuously through time and transitioning from these prescriptions to a more mid-seral thinning prescription, both on a 15 and 30 year rotation interval. In the last scenario, fuel treatments were isolated to around the lake shore (nearby urban settlement) to simulate a low investment alternative were future resources may be limited. Results indicated that the forest will remain a C sink regardless of treatment or fire regime simulated, due to the landscape legacy of historic logging. Achievement of a net C gain required decades with intensive treatment and depended on wildfire activity: Fuel treatments were more effective in a more active fire environment, where the interface between wildfires and treatment areas increased and caused net C gain earlier than as compared to our scenarios with less wildfire activity. Fuel treatments were most effective when continuously applied and strategically placed in high ignition areas. Treatment type and re-application interval were less influential at the landscape scale, but had notable effects on species dynamics within management units. Treatments created more diverse forest conditions by shifting dominance patterns to a more mixed conifer system, with a higher proportion of fire-tolerant species. We demonstrated that a small amount of wildfire on the landscape resulted in significant changes in the C pool, and that strategically placed fuel treatments substantially reduced wildfire risk, increased fire resiliency of the forest, and is beneficial for long-term C management. Implications for landscape management included consideration for prioritization of treatment areas and creating ideal re-entry schedules that meet logistic, safety, and conservation goals. In forests with a concentrated wildland urban interface, fuel treatments may be vital for ensuring human welfare and enhancing forest integrity in a fire-prone future. Close

• 92. [Article] Walking Behavior of Zoo Elephants: Associations between GPS-Measured Daily Walking Distances and Environmental Factors, Social Factors, and Welfare Indicators

  Research with humans and other animals suggests that walking benefits physical health. Perhaps because these links have been demonstrated in other species, it has been suggested that walking is important ...

  Citation × Citation Citation Abstract Copy Title: Walking Behavior of Zoo Elephants: Associations between GPS-Measured Daily Walking Distances and Environmental Factors, Social Factors, and Welfare Indicators Author: Holdgate, Matthew Robert, Meehan, Cheryl L., Hogan, Jennifer N., Miller, Lance J., Soltis, Josesph, Andrews, Jeff, Shepherdson, David J. Year: 2016 Research with humans and other animals suggests that walking benefits physical health. Perhaps because these links have been demonstrated in other species, it has been suggested that walking is important to elephant welfare, and that zoo elephant exhibits should be designed to allow for more walking. Our study is the first to address this suggestion empirically by measuring the mean daily walking distance of elephants in North American zoos, determining the factors that are associated with variations in walking distance, and testing for associations between walking and welfare indicators. We used anklets equipped with GPS data loggers to measure outdoor daily walking distance in 56 adult female African (n = 33) and Asian (n = 23) elephants housed in 30 North American zoos. We collected 259 days of data and determined associations between distance walked and social, housing, management, and demographic factors. Elephants walked an average of 5.3 km/day with no significant difference between species. In our multivariable model, more diverse feeding regimens were correlated with increased walking, and elephants who were fed on a temporally unpredictable feeding schedule walked 1.29 km/day more than elephants fed on a predictable schedule. Distance walked was also positively correlated with an increase in the number of social groupings and negatively correlated with age. We found a small but significant negative correlation between distance walked and nighttime Space Experience, but no other associations between walking distances and exhibit size were found. Finally, distance walked was not related to health or behavioral outcomes including foot health, joint health, body condition, and the performance of stereotypic behavior, suggesting that more research is necessary to determine explicitly how differences in walking may impact elephant welfare. Title: Walking Behavior of Zoo Elephants: Associations between GPS-Measured Daily Walking Distances and Environmental Factors, Social Factors, and Welfare Indicators Author: Holdgate, Matthew Robert, Meehan, Cheryl L., Hogan, Jennifer N., Miller, Lance J., Soltis, Josesph, Andrews, Jeff, Shepherdson, David J. Year: 2016 Research with humans and other animals suggests that walking benefits physical health. Perhaps because these links have been demonstrated in other species, it has been suggested that walking is important to elephant welfare, and that zoo elephant exhibits should be designed to allow for more walking. Our study is the first to address this suggestion empirically by measuring the mean daily walking distance of elephants in North American zoos, determining the factors that are associated with variations in walking distance, and testing for associations between walking and welfare indicators. We used anklets equipped with GPS data loggers to measure outdoor daily walking distance in 56 adult female African (n = 33) and Asian (n = 23) elephants housed in 30 North American zoos. We collected 259 days of data and determined associations between distance walked and social, housing, management, and demographic factors. Elephants walked an average of 5.3 km/day with no significant difference between species. In our multivariable model, more diverse feeding regimens were correlated with increased walking, and elephants who were fed on a temporally unpredictable feeding schedule walked 1.29 km/day more than elephants fed on a predictable schedule. Distance walked was also positively correlated with an increase in the number of social groupings and negatively correlated with age. We found a small but significant negative correlation between distance walked and nighttime Space Experience, but no other associations between walking distances and exhibit size were found. Finally, distance walked was not related to health or behavioral outcomes including foot health, joint health, body condition, and the performance of stereotypic behavior, suggesting that more research is necessary to determine explicitly how differences in walking may impact elephant welfare. Close

• 93. [Article] Siltcoos Lake Nonpoint Source Implementation Grant: Water Quality Conditions and Nutrient Sources

  Siltcoos Lake is a large (1280 hectares), shallow (mean depth 3.3 m; maximum depth 6.7 m) lake located on the Central Oregon Coast, just south of Florence and bordered by Dunes City, Oregon. The outflow ...

  Citation × Citation Citation Abstract Copy Title: Siltcoos Lake Nonpoint Source Implementation Grant: Water Quality Conditions and Nutrient Sources Author: Sytsma, Mark D., Miller, Rich Year: 2010 Siltcoos Lake is a large (1280 hectares), shallow (mean depth 3.3 m; maximum depth 6.7 m) lake located on the Central Oregon Coast, just south of Florence and bordered by Dunes City, Oregon. The outflow and water level of Siltcoos Lake is regulated by a dam on the Siltcoos River 4 km upstream from the Pacific. Several permanent streams feed the lake from its 176 square kilometer watershed including Fiddle Creek, Maple Creek, and Woahink Creek, the outflow from Woahink Lake. Much of the watershed is forested and used for timber harvest, residential development, and limited agricultural production. The lake is popular for recreational activities, particularly fishing for wild coastal Coho salmon, rainbow trout, cutthroat trout, largemouth bass, bluegill, crappie, and yellow perch (Buckman 2004). The lake is also the domestic drinking water source for approximately 125 of the 1330 residents of Dunes City and numerous residents outside the city limits within Lane and Douglas Counties (LCOG 2002). During the fall of 2007 a dense bloom of the potentially toxigenic blue-green algal species Anabaena planktonica prompted Dunes City, the South Coast Water District, the Lane County Health Department, and the Oregon Department of Human Services to issue an advisory against usage of Siltcoos Lake water for drinking and other domestic use (DHS 2007). Residents dependent upon Siltcoos Lake were forced to find alternate domestic water sources for a total of 52 days. This incident was part of a long history of water quality problems including dense algal growth and excessive growth of the non-native aquatic macrophytes Brazilian elodea (Egeria densa), parrotsfeather (Myriophyllum aquaticum), and two-leaf water milfoil (Myriophyllum heterophyllum) (Pfauth and Sytsma 2005; Johnson et al. 1985; McHugh 1979). Because of the water quality problems, the Oregon Department of Environmental Quality (DEQ) placed the lake the 303(d) list of impaired water bodies; specifically due to violations of the “aquatic weeds and algae” water quality criterion (DEQ 1998; DEQ 2006). Dunes City has acted on water quality concerns for both Siltcoos and Woahink Lakes by issuing a temporary building moratorium (Dunes City 2006a), a septic tank maintenance ordinance (Dunes City 2006b), and an ordinance limiting phosphorus use (Dunes City 2007). Preliminary assessments (Johnson, et al. 1985, LCOG 2002) indicate multiple sources of water quality problems including excess nutrient and/or sediment loading from residential development, poorly functioning on-site septic systems, private forestry and agricultural practices and introductions of non-native aquatic plant species. This report summarizes data collected by Portland State University and project partners between June 2008 and May 2009 to better define water quality conditions within the lake as well as potential nutrient sources. Physical, chemical, and biological data were collected at lake and tributary sites over the one year period. Data were evaluated across sites, depth and the season. The information collected will contribute to total maximum daily load (TMDL) development for the Midcoast Lakes and can be used to identify and prioritize restoration activities in the Siltcoos Lake watershed. Title: Siltcoos Lake Nonpoint Source Implementation Grant: Water Quality Conditions and Nutrient Sources Author: Sytsma, Mark D., Miller, Rich Year: 2010 Siltcoos Lake is a large (1280 hectares), shallow (mean depth 3.3 m; maximum depth 6.7 m) lake located on the Central Oregon Coast, just south of Florence and bordered by Dunes City, Oregon. The outflow and water level of Siltcoos Lake is regulated by a dam on the Siltcoos River 4 km upstream from the Pacific. Several permanent streams feed the lake from its 176 square kilometer watershed including Fiddle Creek, Maple Creek, and Woahink Creek, the outflow from Woahink Lake. Much of the watershed is forested and used for timber harvest, residential development, and limited agricultural production. The lake is popular for recreational activities, particularly fishing for wild coastal Coho salmon, rainbow trout, cutthroat trout, largemouth bass, bluegill, crappie, and yellow perch (Buckman 2004). The lake is also the domestic drinking water source for approximately 125 of the 1330 residents of Dunes City and numerous residents outside the city limits within Lane and Douglas Counties (LCOG 2002). During the fall of 2007 a dense bloom of the potentially toxigenic blue-green algal species Anabaena planktonica prompted Dunes City, the South Coast Water District, the Lane County Health Department, and the Oregon Department of Human Services to issue an advisory against usage of Siltcoos Lake water for drinking and other domestic use (DHS 2007). Residents dependent upon Siltcoos Lake were forced to find alternate domestic water sources for a total of 52 days. This incident was part of a long history of water quality problems including dense algal growth and excessive growth of the non-native aquatic macrophytes Brazilian elodea (Egeria densa), parrotsfeather (Myriophyllum aquaticum), and two-leaf water milfoil (Myriophyllum heterophyllum) (Pfauth and Sytsma 2005; Johnson et al. 1985; McHugh 1979). Because of the water quality problems, the Oregon Department of Environmental Quality (DEQ) placed the lake the 303(d) list of impaired water bodies; specifically due to violations of the “aquatic weeds and algae” water quality criterion (DEQ 1998; DEQ 2006). Dunes City has acted on water quality concerns for both Siltcoos and Woahink Lakes by issuing a temporary building moratorium (Dunes City 2006a), a septic tank maintenance ordinance (Dunes City 2006b), and an ordinance limiting phosphorus use (Dunes City 2007). Preliminary assessments (Johnson, et al. 1985, LCOG 2002) indicate multiple sources of water quality problems including excess nutrient and/or sediment loading from residential development, poorly functioning on-site septic systems, private forestry and agricultural practices and introductions of non-native aquatic plant species. This report summarizes data collected by Portland State University and project partners between June 2008 and May 2009 to better define water quality conditions within the lake as well as potential nutrient sources. Physical, chemical, and biological data were collected at lake and tributary sites over the one year period. Data were evaluated across sites, depth and the season. The information collected will contribute to total maximum daily load (TMDL) development for the Midcoast Lakes and can be used to identify and prioritize restoration activities in the Siltcoos Lake watershed. Close

• 94. [Article] Stream-Associated Amphibian Habitat Assessment in the Portland-Vancouver Metropolitan Region

  This study assessed the influence of landscape development on stream-associated amphibians in forested riparian areas within the Portland-Vancouver metropolitan region. Human alteration of landscapes may ...

  Citation × Citation Citation Abstract Copy Title: Stream-Associated Amphibian Habitat Assessment in the Portland-Vancouver Metropolitan Region Author: Dietrich, Andrew Evans Year: 2012 This study assessed the influence of landscape development on stream-associated amphibians in forested riparian areas within the Portland-Vancouver metropolitan region. Human alteration of landscapes may dramatically affect the ecology of neighboring aquatic systems. It was hypothesized that lotic amphibians would be negatively associated with greater amounts of landscape development and positively associated with forested area within the surrounding watershed. Thirty-seven 1st-3rd order streams were sampled between June 21st and September 21st in 2011. Streams potentially providing adequate habitat for stream-obligate amphibians were randomly selected. Amphibians were surveyed along 30-meter stream transects using an active-cover search (ACS). Environmental variables associated with development in surrounding landscapes were measured in situ. GIS delineation was conducted to define landscape-scale variables at stratified distances from riparian networks up-stream of each site via the utilization of the 2006 NLCD dataset and a finer-scale, regional dataset compiled by the Institute for Natural Resources (INR). Amphibians were detected at seventeen of the thirty-seven sampled streams. The most commonly detected species were Dicamptadon tenebrosus, Plethadon vehiculum and Plethadon dunni. Streams where amphibians were observed had lower average water temperature and conductivity, coarser stream substrate and were located on public property more often than streams where no amphibians were detected. Landscape variables were most significant to amphibians within 100 and 200 meters of the upstream stream network. Occupancy of a site by facultative species was best explained by the proportion of mixed forest in the surrounding watershed (R2=0.343, p<0.001). Occupancy of a stream by obligate species was best predicted by measurements of water quality and in-stream cover (Water Temperature: R2=0.275, p<0.001; Water Conductivity: R2=0.248, p<0.001; Cover: R2=0.323, p<0.001). Occupancy of stream refugia by all observed amphibians was positively influenced by higher percentages of forest cover and lower percentages of urban development and herbaceous vegetation in the surrounding watershed. Results of this study indicate that urban refugia must contain adequate riparian forest area, coarse stream substrate and clean, cool water to sustain stream-amphibian communities. Protection of remnant forested headwater stream networks is essential to the conservation of lotic amphibians in this urbanized region. Title: Stream-Associated Amphibian Habitat Assessment in the Portland-Vancouver Metropolitan Region Author: Dietrich, Andrew Evans Year: 2012 This study assessed the influence of landscape development on stream-associated amphibians in forested riparian areas within the Portland-Vancouver metropolitan region. Human alteration of landscapes may dramatically affect the ecology of neighboring aquatic systems. It was hypothesized that lotic amphibians would be negatively associated with greater amounts of landscape development and positively associated with forested area within the surrounding watershed. Thirty-seven 1st-3rd order streams were sampled between June 21st and September 21st in 2011. Streams potentially providing adequate habitat for stream-obligate amphibians were randomly selected. Amphibians were surveyed along 30-meter stream transects using an active-cover search (ACS). Environmental variables associated with development in surrounding landscapes were measured in situ. GIS delineation was conducted to define landscape-scale variables at stratified distances from riparian networks up-stream of each site via the utilization of the 2006 NLCD dataset and a finer-scale, regional dataset compiled by the Institute for Natural Resources (INR). Amphibians were detected at seventeen of the thirty-seven sampled streams. The most commonly detected species were Dicamptadon tenebrosus, Plethadon vehiculum and Plethadon dunni. Streams where amphibians were observed had lower average water temperature and conductivity, coarser stream substrate and were located on public property more often than streams where no amphibians were detected. Landscape variables were most significant to amphibians within 100 and 200 meters of the upstream stream network. Occupancy of a site by facultative species was best explained by the proportion of mixed forest in the surrounding watershed (R2=0.343, p<0.001). Occupancy of a stream by obligate species was best predicted by measurements of water quality and in-stream cover (Water Temperature: R2=0.275, p<0.001; Water Conductivity: R2=0.248, p<0.001; Cover: R2=0.323, p<0.001). Occupancy of stream refugia by all observed amphibians was positively influenced by higher percentages of forest cover and lower percentages of urban development and herbaceous vegetation in the surrounding watershed. Results of this study indicate that urban refugia must contain adequate riparian forest area, coarse stream substrate and clean, cool water to sustain stream-amphibian communities. Protection of remnant forested headwater stream networks is essential to the conservation of lotic amphibians in this urbanized region. Close

• 95. [Article] Ecology of White-Cheeked Crested Gibbons in Laos

  The endangered white-cheeked crested gibbon (Nomascus leucogenys), native to Laos, Vietnam, and perhaps China, remains little known and highly threatened. I studied seasonal variation in the diet, activity ...

  Citation × Citation Citation Abstract Copy Title: Ecology of White-Cheeked Crested Gibbons in Laos Author: Ruppell, Julia Cleverly Year: 2013 The endangered white-cheeked crested gibbon (Nomascus leucogenys), native to Laos, Vietnam, and perhaps China, remains little known and highly threatened. I studied seasonal variation in the diet, activity budget, and ranging behavior of three groups of white-cheeked crested gibbons in Nam Kading National Protected Area, Bolikhamxay Province, Laos, over 12 months in wet seasonal evergreen forest. Crested gibbons (Nomascus spp.) are speculated to be more folivorous than other gibbons, but this has never been confirmed because of the paucity of fieldwork on the genus. I studied diet in relation to forest seasonality to determine the contribution of leaves to the diet over an annual cycle. Although leaves were the main dietary item throughout the year (53-85% of monthly diet), gibbons substantially increased their consumption of fruit during periods when it was most abundant in the forest. Because fruit is a calorically rich source of food, gibbons seek fruit when it is abundant and obtained easily. Young leaf consumption increased when they did not have access to fruit, indicating that their diet is flexible but strongly dependent on seasonal availability of resources. In addition, rainfall had a negative association with fruit abundance and fruit in diet. Activity budgets are an important aspect of a species' ecology because they are directly related to home range use, energy allocation, and diet, but they have never before been studied in gibbons (Nomascus spp.) of the rainy, mountainous, forests of Laos. Annually, the three groups that I studied spent nearly equal amounts of time resting (30%), feeding (33%), and traveling (35%), but only a small amount of time singing (2%). However, the proportion of time allocated to different activities showed significant seasonal variation associated with rainfall and diet, and correlated with home range use. Gibbons increased traveling time and decreased feeding time when they ate more fruit, and they decreased traveling time and increased feeding time when they ate more leaves. When the gibbons spent more of their time traveling, they also had longer day range lengths, and used a higher percentage of their total home range. Moreover, when rainfall was high, the gibbons decreased traveling time and increased time resting and feeding. Average home range size was 37.9 hectares and daily average distance over which the gibbons ranged over the 12 month study was 1.48 km per day. Differences existed among the three groups. Overall, white-cheeked crested gibbons have a home range similar in size or larger than frugivorous gibbons, and larger than the folivorous siamang. Ranging was highly seasonal with shorter day ranges during times of low fruit availability and consumption. During times of high fruit availability and low rainfall, the gibbons took on an energy maximizing strategy where they maintained large home ranges, traveled longer distances and consumed larger quantities of fruit. Gibbons and their habitat in Laos have faced continuous threats over the past 10 years because of large scale development projects and subsistence hunting. Given the highly threatened status of the species in Vietnam and China, the Lao population is certainly the world's largest and the best hope for conservation of behavioral, ecological, and genetic diversity. Resources for conserving species in the country are very limited, and wildlife populations are already greatly fragmented. I describe the current conservation issues and based on the dietary and ranging information that I collected, recommend important conservation measures to safeguard the remaining populations of endangered gibbons from extinction. Title: Ecology of White-Cheeked Crested Gibbons in Laos Author: Ruppell, Julia Cleverly Year: 2013 The endangered white-cheeked crested gibbon (Nomascus leucogenys), native to Laos, Vietnam, and perhaps China, remains little known and highly threatened. I studied seasonal variation in the diet, activity budget, and ranging behavior of three groups of white-cheeked crested gibbons in Nam Kading National Protected Area, Bolikhamxay Province, Laos, over 12 months in wet seasonal evergreen forest. Crested gibbons (Nomascus spp.) are speculated to be more folivorous than other gibbons, but this has never been confirmed because of the paucity of fieldwork on the genus. I studied diet in relation to forest seasonality to determine the contribution of leaves to the diet over an annual cycle. Although leaves were the main dietary item throughout the year (53-85% of monthly diet), gibbons substantially increased their consumption of fruit during periods when it was most abundant in the forest. Because fruit is a calorically rich source of food, gibbons seek fruit when it is abundant and obtained easily. Young leaf consumption increased when they did not have access to fruit, indicating that their diet is flexible but strongly dependent on seasonal availability of resources. In addition, rainfall had a negative association with fruit abundance and fruit in diet. Activity budgets are an important aspect of a species' ecology because they are directly related to home range use, energy allocation, and diet, but they have never before been studied in gibbons (Nomascus spp.) of the rainy, mountainous, forests of Laos. Annually, the three groups that I studied spent nearly equal amounts of time resting (30%), feeding (33%), and traveling (35%), but only a small amount of time singing (2%). However, the proportion of time allocated to different activities showed significant seasonal variation associated with rainfall and diet, and correlated with home range use. Gibbons increased traveling time and decreased feeding time when they ate more fruit, and they decreased traveling time and increased feeding time when they ate more leaves. When the gibbons spent more of their time traveling, they also had longer day range lengths, and used a higher percentage of their total home range. Moreover, when rainfall was high, the gibbons decreased traveling time and increased time resting and feeding. Average home range size was 37.9 hectares and daily average distance over which the gibbons ranged over the 12 month study was 1.48 km per day. Differences existed among the three groups. Overall, white-cheeked crested gibbons have a home range similar in size or larger than frugivorous gibbons, and larger than the folivorous siamang. Ranging was highly seasonal with shorter day ranges during times of low fruit availability and consumption. During times of high fruit availability and low rainfall, the gibbons took on an energy maximizing strategy where they maintained large home ranges, traveled longer distances and consumed larger quantities of fruit. Gibbons and their habitat in Laos have faced continuous threats over the past 10 years because of large scale development projects and subsistence hunting. Given the highly threatened status of the species in Vietnam and China, the Lao population is certainly the world's largest and the best hope for conservation of behavioral, ecological, and genetic diversity. Resources for conserving species in the country are very limited, and wildlife populations are already greatly fragmented. I describe the current conservation issues and based on the dietary and ranging information that I collected, recommend important conservation measures to safeguard the remaining populations of endangered gibbons from extinction. Close

• 96. [Article] Increased Taxonomic and Functional Similarity Does Not Increase the Trophic Similarity of Communities

  Aim: Despite a long-standing research interest in the association between the biodiversity (i.e. taxonomic and functional composition) and trophic structure of communities, our understanding of the relationship ...

  Citation × Citation Citation Abstract Copy Title: Increased Taxonomic and Functional Similarity Does Not Increase the Trophic Similarity of Communities Author: Pool, Thomas K., Cucherousset, Julien, Boulêtreau, Stéphanie, Villéger, Sébastien, Strecker, Angela L., Grenouillet, Gaël Year: 2015 Aim: Despite a long-standing research interest in the association between the biodiversity (i.e. taxonomic and functional composition) and trophic structure of communities, our understanding of the relationship remains limited. Community assembly theory predicts that niche partitioning will result in communities with a diverse array of functional traits, which in turn may facilitate a correspondingly diverse array of trophic interactions that define the trophic niche of those communities. The aim of our study is to test this prediction. Methods: We built a database composed of functional traits and stable isotope values (δ13C and δ15N) for 63 freshwater fish communities containing 109 species in 34 lentic and 29 lotic ecosystems. First, using linear mixed models (i.e. an alpha-diversity approach), we tested whether the taxonomic diversity of communities was positively associated with their functional diversity and if their functional diversity was positively associated with their trophic diversity. Second, we assessed the taxonomic, functional and trophic similarity of communities using multiple regression on distance matrices (MRM) and their respective ‘turnover’ and ‘nestedness-resultant’ components to test if the taxonomic similarity of communities was positively correlated with their functional similarity and if their functional similarity was positively associated with their trophic similarity (i.e. a beta-diversity approach). Results: We found that the functional diversity of communities increased as their taxonomic diversity increased. Similarly, the trophic diversity of communities increased as their functional diversity increased. The pairwise taxonomic and functional similarity of communities were also positively associated, but there was a weak relationship between the functional and trophic similarities of communities. Main conclusions: Our study demonstrates that communities with similar functional characteristics can have disparate food web structures, suggesting that additional site-specific factors influence community variation in trophic niche geometry. Determining the relative importance of functional characteristics and site-specific factors in shaping trophic interactions is crucial for a better understanding of how future species loss and species introductions will affect food web structure and ecosystem functioning. Title: Increased Taxonomic and Functional Similarity Does Not Increase the Trophic Similarity of Communities Author: Pool, Thomas K., Cucherousset, Julien, Boulêtreau, Stéphanie, Villéger, Sébastien, Strecker, Angela L., Grenouillet, Gaël Year: 2015 Aim: Despite a long-standing research interest in the association between the biodiversity (i.e. taxonomic and functional composition) and trophic structure of communities, our understanding of the relationship remains limited. Community assembly theory predicts that niche partitioning will result in communities with a diverse array of functional traits, which in turn may facilitate a correspondingly diverse array of trophic interactions that define the trophic niche of those communities. The aim of our study is to test this prediction. Methods: We built a database composed of functional traits and stable isotope values (δ13C and δ15N) for 63 freshwater fish communities containing 109 species in 34 lentic and 29 lotic ecosystems. First, using linear mixed models (i.e. an alpha-diversity approach), we tested whether the taxonomic diversity of communities was positively associated with their functional diversity and if their functional diversity was positively associated with their trophic diversity. Second, we assessed the taxonomic, functional and trophic similarity of communities using multiple regression on distance matrices (MRM) and their respective ‘turnover’ and ‘nestedness-resultant’ components to test if the taxonomic similarity of communities was positively correlated with their functional similarity and if their functional similarity was positively associated with their trophic similarity (i.e. a beta-diversity approach). Results: We found that the functional diversity of communities increased as their taxonomic diversity increased. Similarly, the trophic diversity of communities increased as their functional diversity increased. The pairwise taxonomic and functional similarity of communities were also positively associated, but there was a weak relationship between the functional and trophic similarities of communities. Main conclusions: Our study demonstrates that communities with similar functional characteristics can have disparate food web structures, suggesting that additional site-specific factors influence community variation in trophic niche geometry. Determining the relative importance of functional characteristics and site-specific factors in shaping trophic interactions is crucial for a better understanding of how future species loss and species introductions will affect food web structure and ecosystem functioning. Close

• 97. [Article] Investigation of Ambient Reactive Nitrogen Emissions Sources and Deposition in the Columbia River Gorge National Scenic Area

  Anthropogenic reactive nitrogen is emitted into the atmosphere from fossil fuel combustion (nitrogen oxides) and agricultural activities (nitrogen oxides and ammonia). Nitrogen oxide emissions have long ...

  Citation × Citation Citation Abstract Copy Title: Investigation of Ambient Reactive Nitrogen Emissions Sources and Deposition in the Columbia River Gorge National Scenic Area Author: Mainord, Jacinda L. Year: 2017 Anthropogenic reactive nitrogen is emitted into the atmosphere from fossil fuel combustion (nitrogen oxides) and agricultural activities (nitrogen oxides and ammonia). Nitrogen oxide emissions have long been controlled for their role in ambient air pollution and human health effects. However, reactive nitrogen deposition is less understood even though it can play a significant role in altering biodiversity, impairing ecosystem and biogeochemical function and degrading cultural artifacts. Although nitrogen deposition is a natural part of biogeochemical cycling, many ecosystems across the United States are at risk of exceeding the critical nitrogen deposition load. While nitrogen oxides are routinely measured in urban areas, far less is known in non-urban landscapes where ecosystems may be especially sensitive. Regional chemical transport models have been used to predict the impacts of ambient reactive nitrogen deposition in non-urban areas, but models have difficulty simulating reactive nitrogen due to poorly quantified emissions, especially from the agricultural sector. My research explores the speciated deposition of reactive nitrogen through monitoring and modeling in the unique field setting of the 150 mile Columbia River Gorge (CRG) located along the border of Oregon and Washington. This site is ideally suited for this investigation due to the large sources of reactive nitrogen at either end of the CRG and unique seasonally driven channel wind flow. Seasonally driven wind allowed us to look at the reactive nitrogen emissions flowing through the CRG to assess ambient the reactive nitrogen partitioning and deposition gradient. Using data collected by the United States Forest Service to control ambient haze in the CRG and our co-located nitrogen oxides (NOx) gas analyzer, we first characterized the influence of seasonal, bimodal wind distributions on the spatial distribution of reactive nitrogen. We found that during winter months with predominantly easterly winds, particulate nitrate and ammonium and gas-phase nitrogen dioxide levels create a gradient from the eastern end to the western end. Particulate nitrate and sulfate mass concentrations influence the CRG gradient during summer months with predominantly western winds. We also found that the magnitude of the impact from east is greater than the magnitude of impact from the west. When we compared our observations to regional chemistry transport models, we found that models are significantly under-predicting levels of reactive nitrogen in the CRG. This bias is not isolated to a single station within the Gorge, but throughout the whole Columbia Basin. Our results indicate that there are under-represented emissions in the region leading to this bias. Partly due to the bias in reactive N gas-phase species in the CRG, regional models have been underestimating the impact of gas-phase reactive N on dry N deposition. We conducted field studies at two sites within the CRG monitoring reactive nitrogen species (nitric oxide, nitrogen dioxide, ammonia, nitric acid, particulate nitrate, particulate ammonium, and particulate sulfate) as well as ozone and meteorological parameters. These measurements allowed us to conduct the first comprehensive analysis of reactive nitrogen partitioning and deposition in the CRG. Through our measurements, we found reactive nitrogen was higher in the spring than the summer. We found concentrations ranging from 0-15 ppbv ammonia, 0-7 ppbv nitric acid, 0-2 μg/m3 ammonium nitrate and 0-1 μg/m3 ammonium sulfate at the sites. Through the measurements of all these species, we evaluated the limiting gas-phase precursor to inorganic nitrogen particle formation. In the springtime, ammonia limits the formation of particulate reactive nitrogen; while in the summer, nitric acid and oxidized sulfur limit the formation of inorganic nitrogen particles. This suggests that there may be more sources of ammonia in the spring with fertilizer application or perhaps reactive nitrogen reservoirs are renoxified through thermal dissociation during warmer summer months. Our estimated deposition from gas and particle phase reactive nitrogen ranged from 0 – 0.14 kg N/ha per day. We also found that gas-phase reactive nitrogen plays the largest role in dry N deposition in the CRG with particle-phase contributing less than 15% of total dry N deposition. These results are important for land managers to understand the total impact of reactive nitrogen to non-urban areas. This research can inform mitigation strategies for haze formation, identify the major species and sources involved in dry N deposition and assess the potential impacts to ecosystems and cultural artifacts. Title: Investigation of Ambient Reactive Nitrogen Emissions Sources and Deposition in the Columbia River Gorge National Scenic Area Author: Mainord, Jacinda L. Year: 2017 Anthropogenic reactive nitrogen is emitted into the atmosphere from fossil fuel combustion (nitrogen oxides) and agricultural activities (nitrogen oxides and ammonia). Nitrogen oxide emissions have long been controlled for their role in ambient air pollution and human health effects. However, reactive nitrogen deposition is less understood even though it can play a significant role in altering biodiversity, impairing ecosystem and biogeochemical function and degrading cultural artifacts. Although nitrogen deposition is a natural part of biogeochemical cycling, many ecosystems across the United States are at risk of exceeding the critical nitrogen deposition load. While nitrogen oxides are routinely measured in urban areas, far less is known in non-urban landscapes where ecosystems may be especially sensitive. Regional chemical transport models have been used to predict the impacts of ambient reactive nitrogen deposition in non-urban areas, but models have difficulty simulating reactive nitrogen due to poorly quantified emissions, especially from the agricultural sector. My research explores the speciated deposition of reactive nitrogen through monitoring and modeling in the unique field setting of the 150 mile Columbia River Gorge (CRG) located along the border of Oregon and Washington. This site is ideally suited for this investigation due to the large sources of reactive nitrogen at either end of the CRG and unique seasonally driven channel wind flow. Seasonally driven wind allowed us to look at the reactive nitrogen emissions flowing through the CRG to assess ambient the reactive nitrogen partitioning and deposition gradient. Using data collected by the United States Forest Service to control ambient haze in the CRG and our co-located nitrogen oxides (NOx) gas analyzer, we first characterized the influence of seasonal, bimodal wind distributions on the spatial distribution of reactive nitrogen. We found that during winter months with predominantly easterly winds, particulate nitrate and ammonium and gas-phase nitrogen dioxide levels create a gradient from the eastern end to the western end. Particulate nitrate and sulfate mass concentrations influence the CRG gradient during summer months with predominantly western winds. We also found that the magnitude of the impact from east is greater than the magnitude of impact from the west. When we compared our observations to regional chemistry transport models, we found that models are significantly under-predicting levels of reactive nitrogen in the CRG. This bias is not isolated to a single station within the Gorge, but throughout the whole Columbia Basin. Our results indicate that there are under-represented emissions in the region leading to this bias. Partly due to the bias in reactive N gas-phase species in the CRG, regional models have been underestimating the impact of gas-phase reactive N on dry N deposition. We conducted field studies at two sites within the CRG monitoring reactive nitrogen species (nitric oxide, nitrogen dioxide, ammonia, nitric acid, particulate nitrate, particulate ammonium, and particulate sulfate) as well as ozone and meteorological parameters. These measurements allowed us to conduct the first comprehensive analysis of reactive nitrogen partitioning and deposition in the CRG. Through our measurements, we found reactive nitrogen was higher in the spring than the summer. We found concentrations ranging from 0-15 ppbv ammonia, 0-7 ppbv nitric acid, 0-2 μg/m3 ammonium nitrate and 0-1 μg/m3 ammonium sulfate at the sites. Through the measurements of all these species, we evaluated the limiting gas-phase precursor to inorganic nitrogen particle formation. In the springtime, ammonia limits the formation of particulate reactive nitrogen; while in the summer, nitric acid and oxidized sulfur limit the formation of inorganic nitrogen particles. This suggests that there may be more sources of ammonia in the spring with fertilizer application or perhaps reactive nitrogen reservoirs are renoxified through thermal dissociation during warmer summer months. Our estimated deposition from gas and particle phase reactive nitrogen ranged from 0 – 0.14 kg N/ha per day. We also found that gas-phase reactive nitrogen plays the largest role in dry N deposition in the CRG with particle-phase contributing less than 15% of total dry N deposition. These results are important for land managers to understand the total impact of reactive nitrogen to non-urban areas. This research can inform mitigation strategies for haze formation, identify the major species and sources involved in dry N deposition and assess the potential impacts to ecosystems and cultural artifacts. Close

• 98. [Article] Chronology and Ecology of Late Pleistocene Megafauna in the Northern Willamette Valley, Oregon

  This study is an investigation of the timing of extinction of late Pleistocene, large bodied mammalian herbivores (megafauna) and of the environment in which they lived. The demise of the megafauna near ...

  Citation × Citation Citation Abstract Copy Title: Chronology and Ecology of Late Pleistocene Megafauna in the Northern Willamette Valley, Oregon Author: Gilmour, Daniel McGowan Year: 2011 This study is an investigation of the timing of extinction of late Pleistocene, large bodied mammalian herbivores (megafauna) and of the environment in which they lived. The demise of the megafauna near the end of the Pleistocene remains unexplained. Owing to potential human involvement in the extinctions, archaeologists have been particularly concerned to understand the causes for faunal losses. Our current lack of understanding of the timing and the causes of the extinctions in North America may result from a deficiency in understanding the histories of each individual species of extinct animal on a local level. Detailed regional chronologies of fauna are necessary for comparison with paleoenvironmental and archaeological data to help sort out causes for extinction. The Willamette Valley of western Oregon has long been noted for finds of megafauna, though records have not been synthesized since the early 20th century and these materials have remained largely unstudied. In this thesis, I first create a catalog of extinct megafauna recovered from the Willamette Valley. Next, using material from the northern valley, I employ AMS radiocarbon dating, stable isotope δ¹³C and δ¹⁵N analyses, and gross inferences based on the dietary specializations and habitat preferences of taxa in order to reconstruct environments and to develop a local chronology of events that is then arrayed against archaeological and paleoenvironmental data. The results of this study indicate that megafaunal populations in the northern Willamette Valley were contemporaneous with the earliest known human populations of the Pacific Northwest, as well as later populations associated with the Clovis Paleoindian Horizon. Consistent with the overkill hypothesis, radiocarbon ages span the length of the Clovis window, but no ages are younger than Clovis. Moreover, all radiocarbon ages are older than or contemporaneous to the onset of the Younger Dryas Stadial. No age ranges fall exclusively within the Younger Dryas. Comparison of megafaunal ages and paleoenvironmental records support the view that climate change contributed to local animal population declines. Prior to ~13,000 cal BP, the Willamette Valley was an open environment; herbivores mainly consumed C₃ vegetation. The timing of the loss of megafauna coincides with increased forested conditions as indicated by regional paleoenvironmental reconstruction. As the timing of megafaunal decline correlates with Clovis, the onset of the Younger Dryas, and increased forested conditions, it is not possible with the data currently available to distinguish the cause of extinction in the Willamette Valley. The age ranges of the fauna coupled with taphonomic and geologic context indicate that the fauna are autochthonous to the Willamette Valley; they do not represent ice rafted carcasses or isolated skeletal elements transported from elsewhere during late Pleistocene glacial outburst floods. Title: Chronology and Ecology of Late Pleistocene Megafauna in the Northern Willamette Valley, Oregon Author: Gilmour, Daniel McGowan Year: 2011 This study is an investigation of the timing of extinction of late Pleistocene, large bodied mammalian herbivores (megafauna) and of the environment in which they lived. The demise of the megafauna near the end of the Pleistocene remains unexplained. Owing to potential human involvement in the extinctions, archaeologists have been particularly concerned to understand the causes for faunal losses. Our current lack of understanding of the timing and the causes of the extinctions in North America may result from a deficiency in understanding the histories of each individual species of extinct animal on a local level. Detailed regional chronologies of fauna are necessary for comparison with paleoenvironmental and archaeological data to help sort out causes for extinction. The Willamette Valley of western Oregon has long been noted for finds of megafauna, though records have not been synthesized since the early 20th century and these materials have remained largely unstudied. In this thesis, I first create a catalog of extinct megafauna recovered from the Willamette Valley. Next, using material from the northern valley, I employ AMS radiocarbon dating, stable isotope δ¹³C and δ¹⁵N analyses, and gross inferences based on the dietary specializations and habitat preferences of taxa in order to reconstruct environments and to develop a local chronology of events that is then arrayed against archaeological and paleoenvironmental data. The results of this study indicate that megafaunal populations in the northern Willamette Valley were contemporaneous with the earliest known human populations of the Pacific Northwest, as well as later populations associated with the Clovis Paleoindian Horizon. Consistent with the overkill hypothesis, radiocarbon ages span the length of the Clovis window, but no ages are younger than Clovis. Moreover, all radiocarbon ages are older than or contemporaneous to the onset of the Younger Dryas Stadial. No age ranges fall exclusively within the Younger Dryas. Comparison of megafaunal ages and paleoenvironmental records support the view that climate change contributed to local animal population declines. Prior to ~13,000 cal BP, the Willamette Valley was an open environment; herbivores mainly consumed C₃ vegetation. The timing of the loss of megafauna coincides with increased forested conditions as indicated by regional paleoenvironmental reconstruction. As the timing of megafaunal decline correlates with Clovis, the onset of the Younger Dryas, and increased forested conditions, it is not possible with the data currently available to distinguish the cause of extinction in the Willamette Valley. The age ranges of the fauna coupled with taphonomic and geologic context indicate that the fauna are autochthonous to the Willamette Valley; they do not represent ice rafted carcasses or isolated skeletal elements transported from elsewhere during late Pleistocene glacial outburst floods. Close

• 99. [Article] Predicting Parturition in a Long-Gestating Species: Behavioral and Hormonal Indicators in the Asian Elephant (Elephas maximus)

  Captive populations of Asian elephants (Elephas maximus) in North America are not self-sustaining, and increasing reproductive success within captive populations is a high priority. The ability to accurately ...

  Citation × Citation Citation Abstract Copy Title: Predicting Parturition in a Long-Gestating Species: Behavioral and Hormonal Indicators in the Asian Elephant (Elephas maximus) Author: Velonis, Heather Kelly Year: 2017 Captive populations of Asian elephants (Elephas maximus) in North America are not self-sustaining, and increasing reproductive success within captive populations is a high priority. The ability to accurately predict parturition can have a direct impact on elephant welfare. Elephants in captivity often require significant preparation and management throughout the birthing process, and complications during labor and delivery can necessitate immediate intervention, including stillbirth, protracted labor, maternal aggression towards a newborn calf, and dystocia. Being able to predict when parturition will commence can ensure appropriate staff is available and adequate monitoring is performed. Routine endocrine sampling can be used to predict parturition in Asian elephants, with a drop in progesterone (P4) to baseline levels signaling parturition in 2-5 days. However, we determined this method is not without limitations, and it is not used in all institutions that house elephants. As changes in hormones regulate and alter behaviors, we investigated behavioral indicators as an additional management tool for predicting parturition, a time of drastic hormone changes. We conducted a study of five pregnancies in Asian elephants at the Oregon Zoo, U.S.A, and Taronga Zoo, Australia, between 2008 and 2012. In Chapter 2, I evaluated progesterone (P4) and cortisol levels across three time periods: Baseline; Pre, (the week preceding the drop in P4); and Post, (the period after the P4 drop). Levels of P4 were significantly lower, and levels of cortisol were significantly higher in the days just prior to parturition. I found considerable intra- and inter-individual variation in both endocrine profiles, which can make endocrine assessments difficult to interpret in real time. In Chapter 3, I investigated whether behaviors in the preparturition period could be predictive of impending parturition in the Asian elephant. ANOVA results indicated a significant difference in the amount of time that elephants spent walking backwards across three time periods (F(2) = 3.723, p = 0.033), with the behavior increasing as parturition approached. These results were supported by a non-parametric Kruskal- Wallis. Using a generalized linear mixed model (GLMM), I found that as P4 levels decrease, walking backwards behavior significantly increases. In Chapter 4, I evaluated investigative trunk behaviors, or “trunk checks”, directed towards the temporal gland near the ear, mammary glands, vulva and anus of the pregnant dam. Investigative behaviors included both self-directed behaviors and those sent from herd mates towards the pregnant dam. Self-directed behaviors are most likely associated with physical changes in the pregnant dam, such as using the trunk to pull on swollen teats. Other-directed behaviors may stem from chemo-sensory signaling or other types of communication between herd mates, such as detecting changes in progesterone or cortisol. I ran GLMM and found that four trunk-check behaviors varied significantly with P4 and/or cortisol profiles. These were: self-checks of mammary glands increased with decreasing P4 levels; herd-mate-checks of mammary glands increased with decreasing P4 levels; self-checks of vulva increased with decreasing P4 levels and increasing cortisol levels; herd-mate-checks of anus increased with increasing cortisol levels. In Chapter 5, I evaluated activity budget behaviors in the pregnant elephants. Generalized comparisons were made to published activity budgets of typical captive Asian elephants. I report that activity budgets are within the range of normal activity, though I note a high level of inter-individual variation. In addition, I compared two sampling techniques, including one-zero and instantaneous sampling, that were used for activity budget data collection. I discuss the different results obtained by each sampling technique. These results are a very promising indication that behaviors, including walking backwards and multiple trunk-check behaviors, are changing over time or with parturition-related hormone profiles. We recommend that keepers, veterinary staff, and other observers that are familiar with the regular behavioral repertoire of a pregnant female should pay close attention to these highlighted behaviors. Keeping track of these behaviors, especially in conjunction with P4 and cortisol tracking, can help staff refine existing windows of expected parturition. Title: Predicting Parturition in a Long-Gestating Species: Behavioral and Hormonal Indicators in the Asian Elephant (Elephas maximus) Author: Velonis, Heather Kelly Year: 2017 Captive populations of Asian elephants (Elephas maximus) in North America are not self-sustaining, and increasing reproductive success within captive populations is a high priority. The ability to accurately predict parturition can have a direct impact on elephant welfare. Elephants in captivity often require significant preparation and management throughout the birthing process, and complications during labor and delivery can necessitate immediate intervention, including stillbirth, protracted labor, maternal aggression towards a newborn calf, and dystocia. Being able to predict when parturition will commence can ensure appropriate staff is available and adequate monitoring is performed. Routine endocrine sampling can be used to predict parturition in Asian elephants, with a drop in progesterone (P4) to baseline levels signaling parturition in 2-5 days. However, we determined this method is not without limitations, and it is not used in all institutions that house elephants. As changes in hormones regulate and alter behaviors, we investigated behavioral indicators as an additional management tool for predicting parturition, a time of drastic hormone changes. We conducted a study of five pregnancies in Asian elephants at the Oregon Zoo, U.S.A, and Taronga Zoo, Australia, between 2008 and 2012. In Chapter 2, I evaluated progesterone (P4) and cortisol levels across three time periods: Baseline; Pre, (the week preceding the drop in P4); and Post, (the period after the P4 drop). Levels of P4 were significantly lower, and levels of cortisol were significantly higher in the days just prior to parturition. I found considerable intra- and inter-individual variation in both endocrine profiles, which can make endocrine assessments difficult to interpret in real time. In Chapter 3, I investigated whether behaviors in the preparturition period could be predictive of impending parturition in the Asian elephant. ANOVA results indicated a significant difference in the amount of time that elephants spent walking backwards across three time periods (F(2) = 3.723, p = 0.033), with the behavior increasing as parturition approached. These results were supported by a non-parametric Kruskal- Wallis. Using a generalized linear mixed model (GLMM), I found that as P4 levels decrease, walking backwards behavior significantly increases. In Chapter 4, I evaluated investigative trunk behaviors, or “trunk checks”, directed towards the temporal gland near the ear, mammary glands, vulva and anus of the pregnant dam. Investigative behaviors included both self-directed behaviors and those sent from herd mates towards the pregnant dam. Self-directed behaviors are most likely associated with physical changes in the pregnant dam, such as using the trunk to pull on swollen teats. Other-directed behaviors may stem from chemo-sensory signaling or other types of communication between herd mates, such as detecting changes in progesterone or cortisol. I ran GLMM and found that four trunk-check behaviors varied significantly with P4 and/or cortisol profiles. These were: self-checks of mammary glands increased with decreasing P4 levels; herd-mate-checks of mammary glands increased with decreasing P4 levels; self-checks of vulva increased with decreasing P4 levels and increasing cortisol levels; herd-mate-checks of anus increased with increasing cortisol levels. In Chapter 5, I evaluated activity budget behaviors in the pregnant elephants. Generalized comparisons were made to published activity budgets of typical captive Asian elephants. I report that activity budgets are within the range of normal activity, though I note a high level of inter-individual variation. In addition, I compared two sampling techniques, including one-zero and instantaneous sampling, that were used for activity budget data collection. I discuss the different results obtained by each sampling technique. These results are a very promising indication that behaviors, including walking backwards and multiple trunk-check behaviors, are changing over time or with parturition-related hormone profiles. We recommend that keepers, veterinary staff, and other observers that are familiar with the regular behavioral repertoire of a pregnant female should pay close attention to these highlighted behaviors. Keeping track of these behaviors, especially in conjunction with P4 and cortisol tracking, can help staff refine existing windows of expected parturition. Close

• 100. [Article] Applying GPS and Accelerometers to the Study of African Savanna (Loxodonta africana) and Asian Elephant (Elephas maximus) Welfare in Zoos

  African savanna elephants (Loxodonta africana) and Asian elephants (Elephas maximus) are a focus of welfare research in zoos due to their high intelligence, complex social structure, and sheer size. Due ...

  Citation × Citation Citation Abstract Copy Title: Applying GPS and Accelerometers to the Study of African Savanna (Loxodonta africana) and Asian Elephant (Elephas maximus) Welfare in Zoos Author: Holdgate, Matthew Robert Year: 2015 African savanna elephants (Loxodonta africana) and Asian elephants (Elephas maximus) are a focus of welfare research in zoos due to their high intelligence, complex social structure, and sheer size. Due to these challenges, some argue that zoos are inherently incapable of providing appropriate care for elephants, while others believe that zoos can fulfill the needs of these species with improved husbandry. There is a general consensus from both within and outside of zoos, however, that zoos must improve their elephant programs or cease exhibiting these animals altogether. Now more than ever, applied research on zoo elephant welfare is needed to provide context for this debate. Researchers are interested in how far zoo elephants walk due to the potential health and welfare benefits of walking in these highly mobile species. Zoo researchers recently adopted GPS technology to study elephant walking, and preliminary evidence suggests that African elephants in large zoo exhibits walk distances that correspond with wild elephants under non-extreme conditions. However, data are limited from Asian elephants and from elephants in more typically-sized exhibits. In Chapter Two, I discuss important methodological considerations of utilizing GPS in a zoo environment, including an introduction to the technology, sources of error and mitigation, methods to improve GPS performance, and possible effects of GPS device attachment on animal behavior. This review shows GPS performance is adequate for tracking zoo elephant walking when proper methodological techniques are applied, and should serve as a useful reference for zoo researchers considering using GPS. In Chapter Three, I used GPS anklets to measure outdoor daily walking distance in 56 adult female African (n = 33) and Asian (n = 23) elephants housed in 30 zoos. I collected 259 days of data and found that elephants walked an average of 5.34 km/day with no significant difference between species. Multivariate regression models predicted that elephants with more dynamic feeding regimens (more diverse feeding types and frequencies; unscheduled feeding times) will walk more. Distance walked was also predicted to be higher in elephants that spend time in a greater number of different social groups. Distance walked was predicted to decline with age. Finally, I found a significant negative correlation between distance walked and nighttime space experience. The results of the analysis suggest that zoos that want to increase walking in their elephants need not rely solely on larger exhibits, but can increase walking by adding quality and complexity to exhibits. However, my results failed to establish a definitive link between walking distance and other validated measures of elephant welfare. Thus, the direct health and welfare benefits of walking in zoo elephants remain unresolved. Resting behaviors are an essential component of animal welfare, but have received little attention in zoological research. In Chapter Four, I used accelerometers in anklets to complete the first large-scale multi-species investigation of zoo elephant recumbence. I collected 344 days of data from 72 adult female African (n = 44) and Asian (n = 28) elephants at 40 zoos. I found that African elephants are recumbent an average of 2.14 hours/day, which is significantly less than Asian elephants at 3.22 hours/day. Multivariate regression models predicted that African elephant recumbence increases when they experience more space at night, and Asian elephant recumbence increases when they spend time housed alone. Both species showed a similar response to substrate, such that African elephants spending time on all-hard substrates are predicted to be recumbent less, while Asian elephants spending time on all-soft substrates are predicted to be recumbent more. The discovery that occasional non-recumbence is a common behavior in zoo elephants also introduces a new area of research that may have important animal welfare consequences. Finally, this study established that zoos should continue their efforts to replace hard substrate with soft substrate in order to provide zoo elephants with environments that facilitate recumbence. Overall, this work assessed walking and recumbence in zoo elephants, which will allow zoos to gauge the prevalence of these behaviors in their elephants as compared to the sub-population studied here. A variety of factors that are associated with these behaviors were also identified. With this information, zoos can prioritize modifications to their facilities and animal management programs to create an environment that encourages zoo elephants to express walking and recumbence behavior, should they choose to do so. This work is one component of the Elephant Welfare Project, the largest zoo animal welfare project ever undertaken, and is unprecedented in both scope and scale. The project was funded by the Institute of Museum and Library Services (IMLS), an independent, U.S., federal, grant-making agency that supports libraries, museums, and zoos. At the time of this writing, the first manuscripts from this project are being submitted to academic journals. These papers will describe the prevalence and distribution of a variety of elephant behaviors and welfare indicators, serve as a benchmark for future elephant welfare studies, and aid in decision making with regard to best practices in elephant management. Title: Applying GPS and Accelerometers to the Study of African Savanna (Loxodonta africana) and Asian Elephant (Elephas maximus) Welfare in Zoos Author: Holdgate, Matthew Robert Year: 2015 African savanna elephants (Loxodonta africana) and Asian elephants (Elephas maximus) are a focus of welfare research in zoos due to their high intelligence, complex social structure, and sheer size. Due to these challenges, some argue that zoos are inherently incapable of providing appropriate care for elephants, while others believe that zoos can fulfill the needs of these species with improved husbandry. There is a general consensus from both within and outside of zoos, however, that zoos must improve their elephant programs or cease exhibiting these animals altogether. Now more than ever, applied research on zoo elephant welfare is needed to provide context for this debate. Researchers are interested in how far zoo elephants walk due to the potential health and welfare benefits of walking in these highly mobile species. Zoo researchers recently adopted GPS technology to study elephant walking, and preliminary evidence suggests that African elephants in large zoo exhibits walk distances that correspond with wild elephants under non-extreme conditions. However, data are limited from Asian elephants and from elephants in more typically-sized exhibits. In Chapter Two, I discuss important methodological considerations of utilizing GPS in a zoo environment, including an introduction to the technology, sources of error and mitigation, methods to improve GPS performance, and possible effects of GPS device attachment on animal behavior. This review shows GPS performance is adequate for tracking zoo elephant walking when proper methodological techniques are applied, and should serve as a useful reference for zoo researchers considering using GPS. In Chapter Three, I used GPS anklets to measure outdoor daily walking distance in 56 adult female African (n = 33) and Asian (n = 23) elephants housed in 30 zoos. I collected 259 days of data and found that elephants walked an average of 5.34 km/day with no significant difference between species. Multivariate regression models predicted that elephants with more dynamic feeding regimens (more diverse feeding types and frequencies; unscheduled feeding times) will walk more. Distance walked was also predicted to be higher in elephants that spend time in a greater number of different social groups. Distance walked was predicted to decline with age. Finally, I found a significant negative correlation between distance walked and nighttime space experience. The results of the analysis suggest that zoos that want to increase walking in their elephants need not rely solely on larger exhibits, but can increase walking by adding quality and complexity to exhibits. However, my results failed to establish a definitive link between walking distance and other validated measures of elephant welfare. Thus, the direct health and welfare benefits of walking in zoo elephants remain unresolved. Resting behaviors are an essential component of animal welfare, but have received little attention in zoological research. In Chapter Four, I used accelerometers in anklets to complete the first large-scale multi-species investigation of zoo elephant recumbence. I collected 344 days of data from 72 adult female African (n = 44) and Asian (n = 28) elephants at 40 zoos. I found that African elephants are recumbent an average of 2.14 hours/day, which is significantly less than Asian elephants at 3.22 hours/day. Multivariate regression models predicted that African elephant recumbence increases when they experience more space at night, and Asian elephant recumbence increases when they spend time housed alone. Both species showed a similar response to substrate, such that African elephants spending time on all-hard substrates are predicted to be recumbent less, while Asian elephants spending time on all-soft substrates are predicted to be recumbent more. The discovery that occasional non-recumbence is a common behavior in zoo elephants also introduces a new area of research that may have important animal welfare consequences. Finally, this study established that zoos should continue their efforts to replace hard substrate with soft substrate in order to provide zoo elephants with environments that facilitate recumbence. Overall, this work assessed walking and recumbence in zoo elephants, which will allow zoos to gauge the prevalence of these behaviors in their elephants as compared to the sub-population studied here. A variety of factors that are associated with these behaviors were also identified. With this information, zoos can prioritize modifications to their facilities and animal management programs to create an environment that encourages zoo elephants to express walking and recumbence behavior, should they choose to do so. This work is one component of the Elephant Welfare Project, the largest zoo animal welfare project ever undertaken, and is unprecedented in both scope and scale. The project was funded by the Institute of Museum and Library Services (IMLS), an independent, U.S., federal, grant-making agency that supports libraries, museums, and zoos. At the time of this writing, the first manuscripts from this project are being submitted to academic journals. These papers will describe the prevalence and distribution of a variety of elephant behaviors and welfare indicators, serve as a benchmark for future elephant welfare studies, and aid in decision making with regard to best practices in elephant management. Close