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• 1. [Article] Managing for Resistance and Resilience of Northern Great Lakes Forests to the Effects of Climate Change

  Climate change is expected to drastically change the environmental conditions which forests depend. Lags in tree species movements will likely be outpaced by a more rapidly changing climate. This may result ...

  Citation × Citation Citation Abstract Copy Title: Managing for Resistance and Resilience of Northern Great Lakes Forests to the Effects of Climate Change Author: Duveneck, Matthew Joshua Year: 2014 Climate change is expected to drastically change the environmental conditions which forests depend. Lags in tree species movements will likely be outpaced by a more rapidly changing climate. This may result in species extirpation, a change in forest structure, and a decline in resistance and resilience (i.e., the ability to persist and recover from external perturbations, respectively). In the northern Great Lakes region of North America, an ecotone exists along the boreal-temperate transition zone where large changes in species composition exist across a climate gradient. Increasing temperatures are observed in the more southern landscapes. As climate change is expected to substantially affect mid-continental landscapes, this region is especially vulnerable to climate change. My research assessed the effects of climate change under business as usual (BAU) management as well as alternative management strategies. To do so, I simulated forest change in two landscapes (northeastern Minnesota and northern lower Michigan) under three climate change scenarios (current climate, low emissions, and high emissions), and four management scenarios (BAU, modified silviculture, expanded reserves, and climate suitable planting) with a spatially-explicit forest simulation model from year 2000 to year 2150. Specifically, I explored how climate change would affect relationships between tree species diversity and productivity (Chapter 2); how expanded reserves and modified silviculture may affect aboveground biomass (AGB) and species diversity (Chapter 3); how climate suitable planting may affect functional diversity, and AGB (Chapter 4); and how alternative management may affect the resistance and resilience of forests to multiple disturbances interacting with climate change (Chapter 5). Under the BAU management scenario, I found that current and low emissions climate scenarios did not affect the relationship between species diversity and productivity; however, under a high emissions climate scenario, a decline in simulated productivity was coupled with a stronger positive relationship between diversity and productivity. Under the high emissions climate scenario, overall productivity declined in both landscapes with specific species declines projected for boreal species such as balsam fir (Abies balsamea) and black spruce (Picea mariana). Under alternative management scenarios, I simulated a limited ability to increase tree species and functional diversity, AGB, and net primary productivity under climate change. The limits of management were especially apparent under the high emissions climate scenario. In a novel approach to measuring resilience, I plotted the recovery of both initial species composition and AGB to stochastic fire events for each simulation. This approach assessed both a general response (i.e. AGB) with a more specific response (i.e. species composition). My results suggest that climate change will reduce the resilience of northern Great Lake forest AGB and species composition and that management effects will be largely outweighed by the declines expected due to climate change. My results highlight the necessity to consider even more innovative and creative solutions under climate change (e.g., planting species from even further south than I simulated). Title: Managing for Resistance and Resilience of Northern Great Lakes Forests to the Effects of Climate Change Author: Duveneck, Matthew Joshua Year: 2014 Climate change is expected to drastically change the environmental conditions which forests depend. Lags in tree species movements will likely be outpaced by a more rapidly changing climate. This may result in species extirpation, a change in forest structure, and a decline in resistance and resilience (i.e., the ability to persist and recover from external perturbations, respectively). In the northern Great Lakes region of North America, an ecotone exists along the boreal-temperate transition zone where large changes in species composition exist across a climate gradient. Increasing temperatures are observed in the more southern landscapes. As climate change is expected to substantially affect mid-continental landscapes, this region is especially vulnerable to climate change. My research assessed the effects of climate change under business as usual (BAU) management as well as alternative management strategies. To do so, I simulated forest change in two landscapes (northeastern Minnesota and northern lower Michigan) under three climate change scenarios (current climate, low emissions, and high emissions), and four management scenarios (BAU, modified silviculture, expanded reserves, and climate suitable planting) with a spatially-explicit forest simulation model from year 2000 to year 2150. Specifically, I explored how climate change would affect relationships between tree species diversity and productivity (Chapter 2); how expanded reserves and modified silviculture may affect aboveground biomass (AGB) and species diversity (Chapter 3); how climate suitable planting may affect functional diversity, and AGB (Chapter 4); and how alternative management may affect the resistance and resilience of forests to multiple disturbances interacting with climate change (Chapter 5). Under the BAU management scenario, I found that current and low emissions climate scenarios did not affect the relationship between species diversity and productivity; however, under a high emissions climate scenario, a decline in simulated productivity was coupled with a stronger positive relationship between diversity and productivity. Under the high emissions climate scenario, overall productivity declined in both landscapes with specific species declines projected for boreal species such as balsam fir (Abies balsamea) and black spruce (Picea mariana). Under alternative management scenarios, I simulated a limited ability to increase tree species and functional diversity, AGB, and net primary productivity under climate change. The limits of management were especially apparent under the high emissions climate scenario. In a novel approach to measuring resilience, I plotted the recovery of both initial species composition and AGB to stochastic fire events for each simulation. This approach assessed both a general response (i.e. AGB) with a more specific response (i.e. species composition). My results suggest that climate change will reduce the resilience of northern Great Lake forest AGB and species composition and that management effects will be largely outweighed by the declines expected due to climate change. My results highlight the necessity to consider even more innovative and creative solutions under climate change (e.g., planting species from even further south than I simulated). Close

• 2. [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

• 3. [Article] Divergent Carbon Dynamics under Climate Change in Forests with Diverse Soils, Tree Species, and Land Use Histories

  Accounting for both climate change and natural disturbances—which typically result in greenhouse gas emissions—is necessary to begin managing forest carbon sequestration. Gaining a complete understanding ...

  Citation × Citation Citation Abstract Copy Title: Divergent Carbon Dynamics under Climate Change in Forests with Diverse Soils, Tree Species, and Land Use Histories Author: Scheller, Robert M., Kretchun, Alec M., Van Tuyl, Steve, Clark, Kenneth L., Lucash, Melissa S., Hom, John Year: 2012 Accounting for both climate change and natural disturbances—which typically result in greenhouse gas emissions—is necessary to begin managing forest carbon sequestration. Gaining a complete understanding of forest carbon dynamics is, however, challenging in systems characterized by historic over-utilization, diverse soils and tree species, and frequent disturbance. In order to elucidate the cascading effects of potential climate change on such systems, we projected forest carbon dynamics, including soil carbon changes, and shifts in tree species composition as a consequence of wildfires and climate change in the New Jersey pine barrens (NJPB) over the next 100 years. To do so, we used the LANDIS-II succession and disturbance model combined with the CENTURY soil model. The model was calibrated and validated using data from three eddy flux towers and the available empirical or literature data. Our results suggest that climate change will not appreciably increase fire sizes and intensity. The recovery of C stocks following substantial disturbances at the turn of the 20th century will play a limited but important role in this system. In areas characterized by high soil water holding capacity, reduced soil moisture may lead to lower total C and these forests may switch from being carbon sinks to becoming carbon neutral towards the latter part of the 21st century. In contrast, other areas characterized by lower soil water holding capacity and drought tolerant species are projected to experience relatively little change over the next 100 years. Across all soil types, however, the regeneration of many key tree species may decline leading to longer-term (beyond 2100) risks to forest C. These divergent responses were largely a function of the dominant tree species, and their respective temperature and soil moisture tolerances, and soil water holding capacity. In summary, the system is initially C conservative but by the end of the 21st century, there is increasing risk of de-stabilization due to declining growth and regeneration. Title: Divergent Carbon Dynamics under Climate Change in Forests with Diverse Soils, Tree Species, and Land Use Histories Author: Scheller, Robert M., Kretchun, Alec M., Van Tuyl, Steve, Clark, Kenneth L., Lucash, Melissa S., Hom, John Year: 2012 Accounting for both climate change and natural disturbances—which typically result in greenhouse gas emissions—is necessary to begin managing forest carbon sequestration. Gaining a complete understanding of forest carbon dynamics is, however, challenging in systems characterized by historic over-utilization, diverse soils and tree species, and frequent disturbance. In order to elucidate the cascading effects of potential climate change on such systems, we projected forest carbon dynamics, including soil carbon changes, and shifts in tree species composition as a consequence of wildfires and climate change in the New Jersey pine barrens (NJPB) over the next 100 years. To do so, we used the LANDIS-II succession and disturbance model combined with the CENTURY soil model. The model was calibrated and validated using data from three eddy flux towers and the available empirical or literature data. Our results suggest that climate change will not appreciably increase fire sizes and intensity. The recovery of C stocks following substantial disturbances at the turn of the 20th century will play a limited but important role in this system. In areas characterized by high soil water holding capacity, reduced soil moisture may lead to lower total C and these forests may switch from being carbon sinks to becoming carbon neutral towards the latter part of the 21st century. In contrast, other areas characterized by lower soil water holding capacity and drought tolerant species are projected to experience relatively little change over the next 100 years. Across all soil types, however, the regeneration of many key tree species may decline leading to longer-term (beyond 2100) risks to forest C. These divergent responses were largely a function of the dominant tree species, and their respective temperature and soil moisture tolerances, and soil water holding capacity. In summary, the system is initially C conservative but by the end of the 21st century, there is increasing risk of de-stabilization due to declining growth and regeneration. Close

• 4. [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

• 5. [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

• 6. [Article] Oregon's Fish and Wildlife in a Changing Climate

  Chapter 7 in: The Oregon Climate Change Assessment Report Oregon's fish and wildlife include animals on land, fish and other species in rivers and lakes, and various kinds of sea life in estuaries and ...

  Citation × Citation Citation Abstract Copy Title: Oregon's Fish and Wildlife in a Changing Climate Author: Hixon, Mark A., Gregory, Stanley V., Robinson, W. Douglas, Baker, C. Scott, Batchelder, Harold P., Epps, Clinton, Garcia, Tiffany S., Haig, Susan M., Letelier, Ricardo M., Lytle, David A., Menge, Bruce A., Miller, Jeffery C., Noakes, David L.G., Peterson, William T., Rice, James M., Rumrill, Steven S., Schreck, Carl B., Suryan, Robert M., Sytsma, Mark D., White, Angelicque E. Year: 2010 Chapter 7 in: The Oregon Climate Change Assessment Report Oregon's fish and wildlife include animals on land, fish and other species in rivers and lakes, and various kinds of sea life in estuaries and coastal ocean. Oregon is one of the most ecologically diverse states in the country. The state’s robust biodiversity, some of which is already threatened or endangered -- inhabits complex and dynamic ecosystems that we have only begun to understand, let alone examine in terms of climate change.It is clear that the abundance and distribution of species are shifting already and will shift more rapidly as habitats on land, in freshwater, and in the sea are altered due to increasing temperatures and related environmental changes. It remains to be seen if past changes are all tied to global climate change or if they are a result of some other variability, but they represent a proxy for how species may shift in a warmer climate. Among the observed species changes: Insects are moving in from the south of Oregon, frogs are reproducing earlier in the year and land birds are shifting their distributions northward and migrating earlier. Freshwater fish are losing their cool-water habitats. In the marine environment, algal blooms have increased (figure 11) and the highly predatory Humboldt squid have shifted their distribution from subtropical and tropical regions, making an appearance off the coast of Oregon in the last few years. In a warmer climate, plant and animal species may have to shift upward or northward on land or deeper at sea for survival. Rare or endangered species may become less abundant or extinct; insect pests, invasive species and harmful algal blooms may become more abundant. Declines in the abundance of species may be caused directly by physiological stress related to changes in temperature, water availability, and other environmental shifts, and/or indirectly by habitat degradation and negative interactions with species that are benefited by climate change (diseases, parasites, predators, and competitors). Understanding the responses of Oregon’s fish and wildlife to climate change will require a better understanding of smaller organisms and insects and ocean species. Knowledge of ecological interactions will be crucial for understanding the related effects of climate change (increased predation or competition, for example). Management and natural resource polices that protect intact ecosystems are a tool for adaptation; native species can live and migrate to these safe refugia. Title: Oregon's Fish and Wildlife in a Changing Climate Author: Hixon, Mark A., Gregory, Stanley V., Robinson, W. Douglas, Baker, C. Scott, Batchelder, Harold P., Epps, Clinton, Garcia, Tiffany S., Haig, Susan M., Letelier, Ricardo M., Lytle, David A., Menge, Bruce A., Miller, Jeffery C., Noakes, David L.G., Peterson, William T., Rice, James M., Rumrill, Steven S., Schreck, Carl B., Suryan, Robert M., Sytsma, Mark D., White, Angelicque E. Year: 2010 Chapter 7 in: The Oregon Climate Change Assessment Report Oregon's fish and wildlife include animals on land, fish and other species in rivers and lakes, and various kinds of sea life in estuaries and coastal ocean. Oregon is one of the most ecologically diverse states in the country. The state’s robust biodiversity, some of which is already threatened or endangered -- inhabits complex and dynamic ecosystems that we have only begun to understand, let alone examine in terms of climate change.It is clear that the abundance and distribution of species are shifting already and will shift more rapidly as habitats on land, in freshwater, and in the sea are altered due to increasing temperatures and related environmental changes. It remains to be seen if past changes are all tied to global climate change or if they are a result of some other variability, but they represent a proxy for how species may shift in a warmer climate. Among the observed species changes: Insects are moving in from the south of Oregon, frogs are reproducing earlier in the year and land birds are shifting their distributions northward and migrating earlier. Freshwater fish are losing their cool-water habitats. In the marine environment, algal blooms have increased (figure 11) and the highly predatory Humboldt squid have shifted their distribution from subtropical and tropical regions, making an appearance off the coast of Oregon in the last few years. In a warmer climate, plant and animal species may have to shift upward or northward on land or deeper at sea for survival. Rare or endangered species may become less abundant or extinct; insect pests, invasive species and harmful algal blooms may become more abundant. Declines in the abundance of species may be caused directly by physiological stress related to changes in temperature, water availability, and other environmental shifts, and/or indirectly by habitat degradation and negative interactions with species that are benefited by climate change (diseases, parasites, predators, and competitors). Understanding the responses of Oregon’s fish and wildlife to climate change will require a better understanding of smaller organisms and insects and ocean species. Knowledge of ecological interactions will be crucial for understanding the related effects of climate change (increased predation or competition, for example). Management and natural resource polices that protect intact ecosystems are a tool for adaptation; native species can live and migrate to these safe refugia. Close

• 7. [Article] Modeling Predator Habitat to Enhance Reintroduction Planning

  Context The success of species reintroduction often depends on predation risk and spatial estimates of predator habitat. The fisher (Pekania pennanti) is a species of conservation concern and populations ...

  Citation × Citation Citation Abstract Copy Title: Modeling Predator Habitat to Enhance Reintroduction Planning Author: Halsey, Shiloh Michael, Zielinski, William J., Scheller, Robert M. Year: 2015 Context The success of species reintroduction often depends on predation risk and spatial estimates of predator habitat. The fisher (Pekania pennanti) is a species of conservation concern and populations in the western United States have declined substantially in the last century. Reintroduction plans are underway, but the ability of the species to establish a selfsustaining population is affected by predation from its primary predator, the bobcat (Lynx rufus). Objectives To develop a habitat model that incorporates both habitat of the focal species and the spatial patterning of predator habitat. To locate areas of densely aggregated habitat that would be suitable for reintroduction. Methods Using camera survey data, we modeled the association between bobcat presence and environmental features using a classification tree. We applied this model to a spatial analysis of fisher habitat and identified reintroduction areas in the southern Washington Cascade Range. Results The classification tree predicted bobcat detection based on elevation and mean tree diameter. The final model identified fisher reintroduction locations primarily in or near existing wilderness areas. Fisher habitat areas identified considering both habitat and predation risk differed from those identified without considering predation. Conclusion Our spatial approach is unique among fisher reintroduction plans by accounting for both resource requirements and risk of predation. It can be used as a template for future reintroduction efforts in other regions and for other species. Using similar models to refine population management and reintroduction should improve the probability of successful population establishment and stability. Title: Modeling Predator Habitat to Enhance Reintroduction Planning Author: Halsey, Shiloh Michael, Zielinski, William J., Scheller, Robert M. Year: 2015 Context The success of species reintroduction often depends on predation risk and spatial estimates of predator habitat. The fisher (Pekania pennanti) is a species of conservation concern and populations in the western United States have declined substantially in the last century. Reintroduction plans are underway, but the ability of the species to establish a selfsustaining population is affected by predation from its primary predator, the bobcat (Lynx rufus). Objectives To develop a habitat model that incorporates both habitat of the focal species and the spatial patterning of predator habitat. To locate areas of densely aggregated habitat that would be suitable for reintroduction. Methods Using camera survey data, we modeled the association between bobcat presence and environmental features using a classification tree. We applied this model to a spatial analysis of fisher habitat and identified reintroduction areas in the southern Washington Cascade Range. Results The classification tree predicted bobcat detection based on elevation and mean tree diameter. The final model identified fisher reintroduction locations primarily in or near existing wilderness areas. Fisher habitat areas identified considering both habitat and predation risk differed from those identified without considering predation. Conclusion Our spatial approach is unique among fisher reintroduction plans by accounting for both resource requirements and risk of predation. It can be used as a template for future reintroduction efforts in other regions and for other species. Using similar models to refine population management and reintroduction should improve the probability of successful population establishment and stability. Close

• 8. [Article] Climate-Suitable Planting as a Strategy for Maintaining Forest Productivity and Functional Diversity

  Within the time frame of the longevity of tree species, climate change will change faster than the ability of natural tree migration. Migration lags may result in reduced productivity and reduced diversity ...

  Citation × Citation Citation Abstract Copy Title: Climate-Suitable Planting as a Strategy for Maintaining Forest Productivity and Functional Diversity Author: Duveneck, Matthew Joshua, Scheller, Robert M. Year: 2015 Within the time frame of the longevity of tree species, climate change will change faster than the ability of natural tree migration. Migration lags may result in reduced productivity and reduced diversity in forests under current management and climate change. We evaluated the efficacy of planting climate-suitable tree species (CSP), those tree species with current or historic distributions immediately south of a focal landscape, to maintain or increase aboveground biomass, productivity, and species and functional diversity. We modeled forest change with the LANDIS-II forest simulation model for 100 years (2000–2100) at a 2-ha cell resolution and five-year time steps within two landscapes in the Great Lakes region (northeastern Minnesota and northern lower Michigan, USA). We compared current climate to low- and high-emission futures. We simulated a low-emission climate future with the Intergovernmental Panel on Climate Change (IPCC) 2007 B1 emission scenario and the Parallel Climate Model Global Circulation Model (GCM). We simulated a high-emission climate future with the IPCC A1FI emission scenario and the Geophysical Fluid Dynamics Laboratory (GFDL) GCM. We compared current forest management practices (business-asusual) to CSP management. In the CSP scenario, we simulated a target planting of 5.28% and 4.97% of forested area per five-year time step in the Minnesota and Michigan landscapes, respectively. We found that simulated CSP species successfully established in both landscapes under all climate scenarios. The presence of CSP species generally increased simulated aboveground biomass. Species diversity increased due to CSP; however, the effect on functional diversity was variable. Because the planted species were functionally similar to many native species, CSP did not result in a consistent increase nor decrease in functional diversity. These results provide an assessment of the potential efficacy and limitations of CSP management. These results have management implications for sites where diversity and productivity are expected to decline. Future efforts to restore a specific species or forest type may not be possible, but CSP may sustain a more general ecosystem service (e.g., aboveground biomass). Title: Climate-Suitable Planting as a Strategy for Maintaining Forest Productivity and Functional Diversity Author: Duveneck, Matthew Joshua, Scheller, Robert M. Year: 2015 Within the time frame of the longevity of tree species, climate change will change faster than the ability of natural tree migration. Migration lags may result in reduced productivity and reduced diversity in forests under current management and climate change. We evaluated the efficacy of planting climate-suitable tree species (CSP), those tree species with current or historic distributions immediately south of a focal landscape, to maintain or increase aboveground biomass, productivity, and species and functional diversity. We modeled forest change with the LANDIS-II forest simulation model for 100 years (2000–2100) at a 2-ha cell resolution and five-year time steps within two landscapes in the Great Lakes region (northeastern Minnesota and northern lower Michigan, USA). We compared current climate to low- and high-emission futures. We simulated a low-emission climate future with the Intergovernmental Panel on Climate Change (IPCC) 2007 B1 emission scenario and the Parallel Climate Model Global Circulation Model (GCM). We simulated a high-emission climate future with the IPCC A1FI emission scenario and the Geophysical Fluid Dynamics Laboratory (GFDL) GCM. We compared current forest management practices (business-asusual) to CSP management. In the CSP scenario, we simulated a target planting of 5.28% and 4.97% of forested area per five-year time step in the Minnesota and Michigan landscapes, respectively. We found that simulated CSP species successfully established in both landscapes under all climate scenarios. The presence of CSP species generally increased simulated aboveground biomass. Species diversity increased due to CSP; however, the effect on functional diversity was variable. Because the planted species were functionally similar to many native species, CSP did not result in a consistent increase nor decrease in functional diversity. These results provide an assessment of the potential efficacy and limitations of CSP management. These results have management implications for sites where diversity and productivity are expected to decline. Future efforts to restore a specific species or forest type may not be possible, but CSP may sustain a more general ecosystem service (e.g., aboveground biomass). Close

• 9. [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

• 10. [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

• 11. [Article] Demography of a Ground Nesting Bird in an Urban System: Are Populations Self-Sustaining?

  Urbanization poses threats to earth’s biota, and retention of remnant native habitat in protected areas within expanding urban boundaries may help alleviate threats to wildlife. However, it is unclear ...

  Citation × Citation Citation Abstract Copy Title: Demography of a Ground Nesting Bird in an Urban System: Are Populations Self-Sustaining? Author: Bartos Smith, Sarah, McKay, Jenny E., Richardson, Jennifer K., Shipley, Amy A., Murphy, Michael T. Year: 2016 Urbanization poses threats to earth’s biota, and retention of remnant native habitat in protected areas within expanding urban boundaries may help alleviate threats to wildlife. However, it is unclear for nearly all nonsynanthropic (i.e., not benefiting from an association with humans) species whether vital rates in urban habitats can sustain populations or if populations persist only through immigration from outside the urban boundary. We conducted a three-year study of spotted towhees (Aves: Pipilo maculatus) breeding in four undeveloped parks in Portland, OR, USA, to measure park-specific seasonal reproductive output (F) and annual adult survival (SA). We developed a stochastic model that combined F and SA with an estimate of first-year survival to measure population growth rate (λ) in all parks assumed to be closed to immigration. F differed among parks but SA did not. Relatively high F was possible because many pairs raised >1 brood/season. When combined with empirical estimates of survival through the 30-day period of post-fledging parental care (SD = 0.645), only 2 of 4 parks were self-sustaining (i.e., λ > 1.0). However, SD reflected substantial loss of fledglings to domestic cats (Felis catus). Assuming no loss to cats and either partial compensatory or additive mortality of fledglings substantially improved prospects of population persistence for declining (sink) populations. Moreover, allowing low levels of immigration to sinks reversed population declines in most parks even when vital rates were insufficient to maintain populations. Our results suggest that nonsynanthropic bird species can persist in urban landscapes, but also that offspring mortality in the post-fledging period may be a critical determinant of population viability. Title: Demography of a Ground Nesting Bird in an Urban System: Are Populations Self-Sustaining? Author: Bartos Smith, Sarah, McKay, Jenny E., Richardson, Jennifer K., Shipley, Amy A., Murphy, Michael T. Year: 2016 Urbanization poses threats to earth’s biota, and retention of remnant native habitat in protected areas within expanding urban boundaries may help alleviate threats to wildlife. However, it is unclear for nearly all nonsynanthropic (i.e., not benefiting from an association with humans) species whether vital rates in urban habitats can sustain populations or if populations persist only through immigration from outside the urban boundary. We conducted a three-year study of spotted towhees (Aves: Pipilo maculatus) breeding in four undeveloped parks in Portland, OR, USA, to measure park-specific seasonal reproductive output (F) and annual adult survival (SA). We developed a stochastic model that combined F and SA with an estimate of first-year survival to measure population growth rate (λ) in all parks assumed to be closed to immigration. F differed among parks but SA did not. Relatively high F was possible because many pairs raised >1 brood/season. When combined with empirical estimates of survival through the 30-day period of post-fledging parental care (SD = 0.645), only 2 of 4 parks were self-sustaining (i.e., λ > 1.0). However, SD reflected substantial loss of fledglings to domestic cats (Felis catus). Assuming no loss to cats and either partial compensatory or additive mortality of fledglings substantially improved prospects of population persistence for declining (sink) populations. Moreover, allowing low levels of immigration to sinks reversed population declines in most parks even when vital rates were insufficient to maintain populations. Our results suggest that nonsynanthropic bird species can persist in urban landscapes, but also that offspring mortality in the post-fledging period may be a critical determinant of population viability. Close

• 12. [Article] Stranding Mortality Patterns in California Sea Lions and Steller Sea Lions in Oregon and Southern Washington, 2006 to 2014

  As changing ocean conditions lead to declining fish stocks and movement of forage fish, sea lions on the Oregon coast are subject to the pressures of declining prey availability and increasing conflicts ...

  Citation × Citation Citation Abstract Copy Title: Stranding Mortality Patterns in California Sea Lions and Steller Sea Lions in Oregon and Southern Washington, 2006 to 2014 Author: Lee, Kessina Year: 2016 As changing ocean conditions lead to declining fish stocks and movement of forage fish, sea lions on the Oregon coast are subject to the pressures of declining prey availability and increasing conflicts with commercial and recreational fisheries. An analysis of strandings of California sea lions, Zalophus californianus, and Steller sea lions, Eumetopias jubatus, from 2006 to 2014, included cause of death, changing ocean conditions, and anthropogenic activity. Causes of death included disease, injury, and human interaction, such as gunshot wounds, fisheries net entanglements and boat strikes. Oregon and Washington strandings of California sea lions are primarily adult and subadult males that migrate north from California rookeries, while Steller sea lions are year-round residents and strandings are comprised of males and females of all ages. While the California sea lion population is currently at or near carrying capacity, the Eastern Pacific population of Steller sea lions was designated as Threatened under the Endangered Species Act until October 2013. Understanding impacts to these two pinniped species is vital to implementing effective management and conservation policies. Oregon and southern Washington strandings of California sea lions and Steller sea lions from 2006 to 2014 were analyzed spatially using the geographic information system (GIS), and temporally to identify possible correlations with prey availability and human interaction. Strandings were found to follow seasonal patterns from year to year: Steller sea lion strandings were highest from May to July, California sea lions peaked in September, October, and November. There was a correlation between significantly high numbers of strandings and the three largest commercial fisheries in Oregon: Chinook salmon, Coho salmon, and Dungeness crab. This analysis provides a format for continuing to monitor primary ecological and anthropogenic drivers of pinniped mortality in Oregon and southern Washington. Title: Stranding Mortality Patterns in California Sea Lions and Steller Sea Lions in Oregon and Southern Washington, 2006 to 2014 Author: Lee, Kessina Year: 2016 As changing ocean conditions lead to declining fish stocks and movement of forage fish, sea lions on the Oregon coast are subject to the pressures of declining prey availability and increasing conflicts with commercial and recreational fisheries. An analysis of strandings of California sea lions, Zalophus californianus, and Steller sea lions, Eumetopias jubatus, from 2006 to 2014, included cause of death, changing ocean conditions, and anthropogenic activity. Causes of death included disease, injury, and human interaction, such as gunshot wounds, fisheries net entanglements and boat strikes. Oregon and Washington strandings of California sea lions are primarily adult and subadult males that migrate north from California rookeries, while Steller sea lions are year-round residents and strandings are comprised of males and females of all ages. While the California sea lion population is currently at or near carrying capacity, the Eastern Pacific population of Steller sea lions was designated as Threatened under the Endangered Species Act until October 2013. Understanding impacts to these two pinniped species is vital to implementing effective management and conservation policies. Oregon and southern Washington strandings of California sea lions and Steller sea lions from 2006 to 2014 were analyzed spatially using the geographic information system (GIS), and temporally to identify possible correlations with prey availability and human interaction. Strandings were found to follow seasonal patterns from year to year: Steller sea lion strandings were highest from May to July, California sea lions peaked in September, October, and November. There was a correlation between significantly high numbers of strandings and the three largest commercial fisheries in Oregon: Chinook salmon, Coho salmon, and Dungeness crab. This analysis provides a format for continuing to monitor primary ecological and anthropogenic drivers of pinniped mortality in Oregon and southern Washington. Close

• 13. [Article] Where Have All the Native Fish Gone? The Fate of Fish that Lewis and Clark Encountered on the Lower Columbia River

  As part of a special issue of the 'Oregon Historical Quarterly,' discusses the native species of fish in the lower Columbia River described by Meriwether Lewis and William Clark in 1805-06. They identified ...

  Citation × Citation Citation Abstract Copy Title: Where Have All the Native Fish Gone? The Fate of Fish that Lewis and Clark Encountered on the Lower Columbia River Author: Butler, Virginia L. Year: 2004 As part of a special issue of the 'Oregon Historical Quarterly,' discusses the native species of fish in the lower Columbia River described by Meriwether Lewis and William Clark in 1805-06. They identified red charr, salmon trout, sturgeon, anchovy, skeet, and other fish that Indians caught and used as trade items with the Corps of Discovery. However, editors of the Lewis and Clark journals have often erred in identifying the fish Lewis and Clark described; the challenge in identifying anadromous fish lies in changing coloration, markings, and examination of habitat. There has been a drastic decline of native fish since 1805 and a growing dominance of exotic species. Title: Where Have All the Native Fish Gone? The Fate of Fish that Lewis and Clark Encountered on the Lower Columbia River Author: Butler, Virginia L. Year: 2004 As part of a special issue of the 'Oregon Historical Quarterly,' discusses the native species of fish in the lower Columbia River described by Meriwether Lewis and William Clark in 1805-06. They identified red charr, salmon trout, sturgeon, anchovy, skeet, and other fish that Indians caught and used as trade items with the Corps of Discovery. However, editors of the Lewis and Clark journals have often erred in identifying the fish Lewis and Clark described; the challenge in identifying anadromous fish lies in changing coloration, markings, and examination of habitat. There has been a drastic decline of native fish since 1805 and a growing dominance of exotic species. Close

• 14. [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

• 15. [Article] Foliar Nutrient Concentrations Related to Soil Sources Across a Range of Sites in the Northeastern United States

  Understanding the supply of nutrients from various soil sources and the sensitivity of tree species to soil nutrient availability is critical for predicting the effects of declines in base cations due ...

  Citation × Citation Citation Abstract Copy Title: Foliar Nutrient Concentrations Related to Soil Sources Across a Range of Sites in the Northeastern United States Author: Lucash, Melissa S., Yanai, Ruth D., Blum, Joel D., Park, B. B. Year: 2011 Understanding the supply of nutrients from various soil sources and the sensitivity of tree species to soil nutrient availability is critical for predicting the effects of declines in base cations due to acid rain and forest harvesting on forest health and productivity. We collected soil samples from 19 sites in the northeastern United States, chemically analyzed them using a sequential extraction procedure, and compared them to the chemical composition of foliage of the dominant tree species. Concentrations of Ca and Mg in foliage were correlated with exchangeable Ca and Mg concentrations in the upper mineral soil; for most tree species they were also correlated to acid-extractable Ca and Mg in the parent material (C horizon). Foliar P was better correlated with soil P in the upper mineral soil than in the C horizon, while foliar AI was insensitive to soil AI concentrations. In five sites in New Hampshire, the Ca/Sr of foliage was consistent with that of the Oie horizon, after taking the reported discrimination of Ca over Sr into account. In sites in New York, without an Oie horizon, the Ca/Sr of foliage was too high to be explained by any of the soil pools. A comparison of Ca/Sr ratios of foliage among species at common sites showed oak (Quercus spp.) to have higher Ca/Sr ratios than sugar maple (Acer saccharum Marsh.), birch (Betula spp.), red maple (A. rubrum L.) and beech (Fagus spp.). The interpretation of soil Ca sources from Ca/Sr ratios is complicated at sites where a single horizon does not dominate the source. Title: Foliar Nutrient Concentrations Related to Soil Sources Across a Range of Sites in the Northeastern United States Author: Lucash, Melissa S., Yanai, Ruth D., Blum, Joel D., Park, B. B. Year: 2011 Understanding the supply of nutrients from various soil sources and the sensitivity of tree species to soil nutrient availability is critical for predicting the effects of declines in base cations due to acid rain and forest harvesting on forest health and productivity. We collected soil samples from 19 sites in the northeastern United States, chemically analyzed them using a sequential extraction procedure, and compared them to the chemical composition of foliage of the dominant tree species. Concentrations of Ca and Mg in foliage were correlated with exchangeable Ca and Mg concentrations in the upper mineral soil; for most tree species they were also correlated to acid-extractable Ca and Mg in the parent material (C horizon). Foliar P was better correlated with soil P in the upper mineral soil than in the C horizon, while foliar AI was insensitive to soil AI concentrations. In five sites in New Hampshire, the Ca/Sr of foliage was consistent with that of the Oie horizon, after taking the reported discrimination of Ca over Sr into account. In sites in New York, without an Oie horizon, the Ca/Sr of foliage was too high to be explained by any of the soil pools. A comparison of Ca/Sr ratios of foliage among species at common sites showed oak (Quercus spp.) to have higher Ca/Sr ratios than sugar maple (Acer saccharum Marsh.), birch (Betula spp.), red maple (A. rubrum L.) and beech (Fagus spp.). The interpretation of soil Ca sources from Ca/Sr ratios is complicated at sites where a single horizon does not dominate the source. Close

• 16. [Article] 2005 Diamond Lake Submersed Aquatic Vegetation Survey

  Diamond Lake is a large natural lake having a surface area of some 3214 acres (1300.7 hectares) and a maximum depth of 52 feet (15.8 meters). It is located within the Umpqua National Forest in the Southern ...

  Citation × Citation Citation Abstract Copy Title: 2005 Diamond Lake Submersed Aquatic Vegetation Survey Author: Sytsma, Mark D., Pfauth, Mary Year: 2006 Diamond Lake is a large natural lake having a surface area of some 3214 acres (1300.7 hectares) and a maximum depth of 52 feet (15.8 meters). It is located within the Umpqua National Forest in the Southern Cascade Mountains of Oregon, at an elevation of over 5000 feet (>1524 meters). Diamond Lake is a high-use waterbody that supports angling, public campgrounds, recreational boating, swimming, and water skiing. The human activity associated with the lake has been a significant contributor to the economy of southern Oregon since the early part of the twentieth century. Historically Diamond Lake was fishless but since 1910 the lake has been managed as a popular trophy trout fishery. The unauthorized introduction of the tui chub (Gila bicolor) into the lake in the 1930s caused disruption of the food web and a decline in the fishery. In 1954, the Oregon Game Commission constructed a canal near the Lake Creek outlet, lowered the lake level, and treated Diamond Lake with rotenone, to eradicate tui chub. The lake was restocked with trout following the successful rotenone treatment and a fishery was maintained for several decades. In 1992, tui chub were reintroduced, through accidental introduction or intentional illegal stocking, and again caused a decline in the trout fishery. Originally mesotrophic, Diamond Lake Diamond Lake productivity increased over the last century to a eutrophic state, and is currently included on the Oregon Department of Environmental Quality (ODEQ) 303(d) list of water quality limited water bodies for pH and algae. The lake had severe blooms of the cyanobacteria (blue-green algae) Anabaena flos-aquae, which produce neurotoxins, in the summers of 2001, 2002, and 2003. Microcystis aeruginosa, another toxin producing cyanobacterium species, was also present in the 2003 bloom. Diamond Lake was closed to some public uses (wading, swimming, water skiing, and boating) during portions of all three summers due to public health and safety concerns. Algae blooms and declining trout fishery have been attributed to alteration of the food web by the tui chubs. The chubs spawn early and consume the zooplankton in the lake, which reduces grazing pressure on phytoplankton. Since the lake is nitrogen limited, nitrogen-fixing cyanobacteria dominate the phytoplankton community. Therefore, the chubs reduce the quality of the trout fishery by reducing food available for trout and impact water quality by facilitating cyanobacteria blooms, which can be toxic. In response to the impact of the tui chub on Diamond Lake the US Forest Service and Oregon Department of Fish and Wildlife are collaborating in a tui chub eradication effort. The eradication plan includes a 2.4-m (8 ft) drawdown of the lake in the winter and spring of 2006 and a rotenone treatment of remaining lake volume in 2006 to kill any remaining fish. The US Forest Service prepared an EIS for the drawdown and rotenone treatment. Potential impacts of the drawdown on littoral aquatic plant communities were identified in the EIS. The US Forest Service conducted a qualitative survey to develop a species list for the lake. The survey described here provides a quantitative, pretreatment measure of cover and biomass of aquatic plants in Diamond Lake. Follow-up sampling, using similar methods, will permit assessment of changes in the plant community following drawdown and refilling of the lake. Title: 2005 Diamond Lake Submersed Aquatic Vegetation Survey Author: Sytsma, Mark D., Pfauth, Mary Year: 2006 Diamond Lake is a large natural lake having a surface area of some 3214 acres (1300.7 hectares) and a maximum depth of 52 feet (15.8 meters). It is located within the Umpqua National Forest in the Southern Cascade Mountains of Oregon, at an elevation of over 5000 feet (>1524 meters). Diamond Lake is a high-use waterbody that supports angling, public campgrounds, recreational boating, swimming, and water skiing. The human activity associated with the lake has been a significant contributor to the economy of southern Oregon since the early part of the twentieth century. Historically Diamond Lake was fishless but since 1910 the lake has been managed as a popular trophy trout fishery. The unauthorized introduction of the tui chub (Gila bicolor) into the lake in the 1930s caused disruption of the food web and a decline in the fishery. In 1954, the Oregon Game Commission constructed a canal near the Lake Creek outlet, lowered the lake level, and treated Diamond Lake with rotenone, to eradicate tui chub. The lake was restocked with trout following the successful rotenone treatment and a fishery was maintained for several decades. In 1992, tui chub were reintroduced, through accidental introduction or intentional illegal stocking, and again caused a decline in the trout fishery. Originally mesotrophic, Diamond Lake Diamond Lake productivity increased over the last century to a eutrophic state, and is currently included on the Oregon Department of Environmental Quality (ODEQ) 303(d) list of water quality limited water bodies for pH and algae. The lake had severe blooms of the cyanobacteria (blue-green algae) Anabaena flos-aquae, which produce neurotoxins, in the summers of 2001, 2002, and 2003. Microcystis aeruginosa, another toxin producing cyanobacterium species, was also present in the 2003 bloom. Diamond Lake was closed to some public uses (wading, swimming, water skiing, and boating) during portions of all three summers due to public health and safety concerns. Algae blooms and declining trout fishery have been attributed to alteration of the food web by the tui chubs. The chubs spawn early and consume the zooplankton in the lake, which reduces grazing pressure on phytoplankton. Since the lake is nitrogen limited, nitrogen-fixing cyanobacteria dominate the phytoplankton community. Therefore, the chubs reduce the quality of the trout fishery by reducing food available for trout and impact water quality by facilitating cyanobacteria blooms, which can be toxic. In response to the impact of the tui chub on Diamond Lake the US Forest Service and Oregon Department of Fish and Wildlife are collaborating in a tui chub eradication effort. The eradication plan includes a 2.4-m (8 ft) drawdown of the lake in the winter and spring of 2006 and a rotenone treatment of remaining lake volume in 2006 to kill any remaining fish. The US Forest Service prepared an EIS for the drawdown and rotenone treatment. Potential impacts of the drawdown on littoral aquatic plant communities were identified in the EIS. The US Forest Service conducted a qualitative survey to develop a species list for the lake. The survey described here provides a quantitative, pretreatment measure of cover and biomass of aquatic plants in Diamond Lake. Follow-up sampling, using similar methods, will permit assessment of changes in the plant community following drawdown and refilling of the lake. Close

• 17. [Article] “A Caretaker Responsibility”: Revisiting Klamath and Modoc Traditions of Plant Community Management

  Conventionally, the Klamath and Modoc Indians of south-central Oregon and northeastern California are depicted as hunter-gatherers, who took no active role in the management of plant communities. In the ...

  Citation × Citation Citation Abstract Copy Title: “A Caretaker Responsibility”: Revisiting Klamath and Modoc Traditions of Plant Community Management Author: Deur, Douglas Year: 2009 Conventionally, the Klamath and Modoc Indians of south-central Oregon and northeastern California are depicted as hunter-gatherers, who took no active role in the management of plant communities. In the course of a multi-year ethnographic effort, however, tribal elders have identified a complex of interrelated plant management practices that are consistent with contemporary definitions of plant cultivation. These include the management of black huckleberry (Vaccinium membranaceum) yields in subalpine environments, the management of marsh-edge environments for yellow pond lily (Nuphar polysepalum), the tending of ‘‘epos’’ or yampah (Perideridia spp.) digging sites, and the selective harvest of tree cambium, sap, and wood – especially from pines (Pinus spp.) and junipers (Juniperus spp). Together, these accounts suggest that plant management was widespread, that it often served to geographically concentrate culturally preferred species, and that it was rooted as much in cosmological motivations as economic ones. Factors contributing to the decline of traditional management practices are also briefly addressed. Title: “A Caretaker Responsibility”: Revisiting Klamath and Modoc Traditions of Plant Community Management Author: Deur, Douglas Year: 2009 Conventionally, the Klamath and Modoc Indians of south-central Oregon and northeastern California are depicted as hunter-gatherers, who took no active role in the management of plant communities. In the course of a multi-year ethnographic effort, however, tribal elders have identified a complex of interrelated plant management practices that are consistent with contemporary definitions of plant cultivation. These include the management of black huckleberry (Vaccinium membranaceum) yields in subalpine environments, the management of marsh-edge environments for yellow pond lily (Nuphar polysepalum), the tending of ‘‘epos’’ or yampah (Perideridia spp.) digging sites, and the selective harvest of tree cambium, sap, and wood – especially from pines (Pinus spp.) and junipers (Juniperus spp). Together, these accounts suggest that plant management was widespread, that it often served to geographically concentrate culturally preferred species, and that it was rooted as much in cosmological motivations as economic ones. Factors contributing to the decline of traditional management practices are also briefly addressed. Close

• 18. [Article] Long-term Responses of Phalaris arundinacea and Columbia River Bottomland Vegetation to Managed Flooding

  I sought to determine the effect of managed flooding on Phalaris arundinacea L. and other plant species distributions in a large wetland complex, Smith and Bybee Wetlands (SBW), in northwestern Oregon. ...

  Citation × Citation Citation Abstract Copy Title: Long-term Responses of Phalaris arundinacea and Columbia River Bottomland Vegetation to Managed Flooding Author: Farrelly, Tina Schantz Year: 2012 I sought to determine the effect of managed flooding on Phalaris arundinacea L. and other plant species distributions in a large wetland complex, Smith and Bybee Wetlands (SBW), in northwestern Oregon. Altered hydrology has reduced historically high spring flow and prematurely initiated the historic summer drying period at SBW. This alteration has increased the coverage of invasive plants (e.g., P. arundinacea) causing a decrease in native plant cover and thus degrading ecological functions. SBW managers installed a water control structure (WCS) between SBW and the Columbia Slough/River system to impound winter rainfall and thus approximate the ecological benefits that natural flooding provided as well as reduce the abundance of P. arundinacea. Prior researchers conducted intensive vegetation and hydrological monitoring in 2003 (during the season immediately before WCS installation) and 2004. I conducted similar analysis in the fifth and sixth years, 2008 and 2009, following establishment of the WCS. Both study years, I determined percent cover of all vegetation on transects established in 2003. The results, including 2004, as well as 2008 and 2009 showed a reduced cover of P. arundinacea in areas experiencing at least 0.6 meters of inundation and an increased cover of native plant communities when compared to the 2003 baseline data. Native Carex aperta Boott. cover increased 7-fold from 0.3% to 2.3%; Polygonum species cover increased from 20.0% to 52.6%; and Salix lucida Muhl. ssp. lasiandra (Benth.) E. Murray cover increased from 10.9% to 15.5% cover. P. arundinacea declined by over one-third from 44.4% to 28.1% cover following water management. Since hydrology management began, the native Polygonum species community replaced P. arundinacea as the dominant species in the emergent zone. The results of this study refined the suggested depth of inundation needed to reduce P. arundinacea cover in such lake-wetland complexes as SBW from 0.85 meters (based on 2004 study results) to 0.6 meters. Shannon Diversity decreased following water management. The findings of this study demonstrated that water management can enhance native bottomland communities, especially those comprised of obligate wetland species, and reduce P. arundinacea cover in areas experiencing at least 0.6 meters of inundation. Title: Long-term Responses of Phalaris arundinacea and Columbia River Bottomland Vegetation to Managed Flooding Author: Farrelly, Tina Schantz Year: 2012 I sought to determine the effect of managed flooding on Phalaris arundinacea L. and other plant species distributions in a large wetland complex, Smith and Bybee Wetlands (SBW), in northwestern Oregon. Altered hydrology has reduced historically high spring flow and prematurely initiated the historic summer drying period at SBW. This alteration has increased the coverage of invasive plants (e.g., P. arundinacea) causing a decrease in native plant cover and thus degrading ecological functions. SBW managers installed a water control structure (WCS) between SBW and the Columbia Slough/River system to impound winter rainfall and thus approximate the ecological benefits that natural flooding provided as well as reduce the abundance of P. arundinacea. Prior researchers conducted intensive vegetation and hydrological monitoring in 2003 (during the season immediately before WCS installation) and 2004. I conducted similar analysis in the fifth and sixth years, 2008 and 2009, following establishment of the WCS. Both study years, I determined percent cover of all vegetation on transects established in 2003. The results, including 2004, as well as 2008 and 2009 showed a reduced cover of P. arundinacea in areas experiencing at least 0.6 meters of inundation and an increased cover of native plant communities when compared to the 2003 baseline data. Native Carex aperta Boott. cover increased 7-fold from 0.3% to 2.3%; Polygonum species cover increased from 20.0% to 52.6%; and Salix lucida Muhl. ssp. lasiandra (Benth.) E. Murray cover increased from 10.9% to 15.5% cover. P. arundinacea declined by over one-third from 44.4% to 28.1% cover following water management. Since hydrology management began, the native Polygonum species community replaced P. arundinacea as the dominant species in the emergent zone. The results of this study refined the suggested depth of inundation needed to reduce P. arundinacea cover in such lake-wetland complexes as SBW from 0.85 meters (based on 2004 study results) to 0.6 meters. Shannon Diversity decreased following water management. The findings of this study demonstrated that water management can enhance native bottomland communities, especially those comprised of obligate wetland species, and reduce P. arundinacea cover in areas experiencing at least 0.6 meters of inundation. Close

• 19. [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

• 20. [Article] A Behavior-Based Framework for Assessing Barrier Effects to Wildlife from Vehicle Traffic Volume

  Roads, while central to the function of human society, create barriers to animal movement through collisions and habitat fragmentation. Barriers to animal movement affect the evolution and trajectory of ...

  Citation × Citation Citation Abstract Copy Title: A Behavior-Based Framework for Assessing Barrier Effects to Wildlife from Vehicle Traffic Volume Author: Jacobson, Sandra L., Bliss-Ketchum, Leslie L., de Rivera, Catherine E., Smith, Winston P. Year: 2016 Roads, while central to the function of human society, create barriers to animal movement through collisions and habitat fragmentation. Barriers to animal movement affect the evolution and trajectory of populations. Investigators have attempted to use traffic volume, the number of vehicles passing a point on a road segment, to predict effects to wildlife populations approximately linearly and along taxonomic lines; however, taxonomic groupings cannot provide sound predictions because closely related species often respond differently. We assess the role of wildlife behavioral responses to traffic volume as a tool to predict barrier effects from vehicle-caused mortality and avoidance, to provide an early warning system that recognizes traffic volume as a trigger for mitigation, and to better interpret roadkill data. We propose four categories of behavioral response based on the perceived danger to traffic: Nonresponders, Pausers, Speeders, and Avoiders. Nonresponders attempt to cross highways regardless of traffic volume. Pausers stop in the face of danger so have a low probability of successful crossing when traffic volume increases. Hence, highway barrier effects are primarily due to mortality for Nonresponders and Pausers at high traffic volumes. Speeders run away from danger but are unable to do so successfully as traffic volume increases. At moderate to high volume, Speeders are repelled by traffic danger. Avoiders face lower mortality than other categories because they begin to avoid traffic at relatively low traffic volumes. Hence, avoidance causes barrier effects more than mortality for Speeders and Avoiders even at relatively moderate traffic volumes. By considering a species’ risk-avoidance response to traffic, managers can make more appropriate and timely decisions to mitigate effects before populations decline or become locally extinct. Title: A Behavior-Based Framework for Assessing Barrier Effects to Wildlife from Vehicle Traffic Volume Author: Jacobson, Sandra L., Bliss-Ketchum, Leslie L., de Rivera, Catherine E., Smith, Winston P. Year: 2016 Roads, while central to the function of human society, create barriers to animal movement through collisions and habitat fragmentation. Barriers to animal movement affect the evolution and trajectory of populations. Investigators have attempted to use traffic volume, the number of vehicles passing a point on a road segment, to predict effects to wildlife populations approximately linearly and along taxonomic lines; however, taxonomic groupings cannot provide sound predictions because closely related species often respond differently. We assess the role of wildlife behavioral responses to traffic volume as a tool to predict barrier effects from vehicle-caused mortality and avoidance, to provide an early warning system that recognizes traffic volume as a trigger for mitigation, and to better interpret roadkill data. We propose four categories of behavioral response based on the perceived danger to traffic: Nonresponders, Pausers, Speeders, and Avoiders. Nonresponders attempt to cross highways regardless of traffic volume. Pausers stop in the face of danger so have a low probability of successful crossing when traffic volume increases. Hence, highway barrier effects are primarily due to mortality for Nonresponders and Pausers at high traffic volumes. Speeders run away from danger but are unable to do so successfully as traffic volume increases. At moderate to high volume, Speeders are repelled by traffic danger. Avoiders face lower mortality than other categories because they begin to avoid traffic at relatively low traffic volumes. Hence, avoidance causes barrier effects more than mortality for Speeders and Avoiders even at relatively moderate traffic volumes. By considering a species’ risk-avoidance response to traffic, managers can make more appropriate and timely decisions to mitigate effects before populations decline or become locally extinct. Close

• 21. [Article] Mangrove-Exported Nutrient Incorporation by Sessile Coral Reef Invertebrates

  Coastal mangrove forests were historically considered as a source of organic matter (OM) for adjacent marine systems due to high net primary production; yet recent research suggesting little uptake through ...

  Citation × Citation Citation Abstract Copy Title: Mangrove-Exported Nutrient Incorporation by Sessile Coral Reef Invertebrates Author: Granek, Elise F., Compton, Jana E., Phillips, Donald L. Year: 2009 Coastal mangrove forests were historically considered as a source of organic matter (OM) for adjacent marine systems due to high net primary production; yet recent research suggesting little uptake through the food web because of low nutritional quality, challenges the concept of trophic linkage between mangrove forests and coral reefs. To examine the importance of mangrove forests to coral reef nutrient availability, we examined sessile reef-forming invertebrate consumers including hard corals, sponges, a bivalve mollusc, polychaete annelid and tunicate, and potential sources of OM (decaying mangrove leaves, microalgae, macroalgae, and seagrass) in Bocas del Toro, Panama. Using stable isotope analyses of δ34S and δ13C and a concentration-dependent version of the IsoSource mixing model, we were able to discriminate among and determine the range of potential contributions of our four OM sources to consumers. Contributions of microalgae and macroalgae were often indeterminate due to high variability, yet seagrass and mangrove contributions were often substantial. Mangrove OM ranged across sites and species of filter feeders from 0 to 57%, 7 to 41%, and 18 to 52% for sponges, file clams, and feather duster worms, respectively. Mangrove contribution to corals (Acropora cervicornis, Agaricia fragilis, Agaricia tenuifolia, Montastrea annularis, Diploria sp.) ranged from 0 to 44%. To examine whether OM contribution varied with distance from mangroves, we conducted a sponge transplant experiment that demonstrated declining mangrove contribution across three sponge species with increasing distance from the shore. These results supported the hypothesis of mangrove-coral reef nutrient linkages, providing the first evidence that mangrove inputs of OM to sessile invertebrates are substantial, accounting for 0–57% of the composition. Title: Mangrove-Exported Nutrient Incorporation by Sessile Coral Reef Invertebrates Author: Granek, Elise F., Compton, Jana E., Phillips, Donald L. Year: 2009 Coastal mangrove forests were historically considered as a source of organic matter (OM) for adjacent marine systems due to high net primary production; yet recent research suggesting little uptake through the food web because of low nutritional quality, challenges the concept of trophic linkage between mangrove forests and coral reefs. To examine the importance of mangrove forests to coral reef nutrient availability, we examined sessile reef-forming invertebrate consumers including hard corals, sponges, a bivalve mollusc, polychaete annelid and tunicate, and potential sources of OM (decaying mangrove leaves, microalgae, macroalgae, and seagrass) in Bocas del Toro, Panama. Using stable isotope analyses of δ34S and δ13C and a concentration-dependent version of the IsoSource mixing model, we were able to discriminate among and determine the range of potential contributions of our four OM sources to consumers. Contributions of microalgae and macroalgae were often indeterminate due to high variability, yet seagrass and mangrove contributions were often substantial. Mangrove OM ranged across sites and species of filter feeders from 0 to 57%, 7 to 41%, and 18 to 52% for sponges, file clams, and feather duster worms, respectively. Mangrove contribution to corals (Acropora cervicornis, Agaricia fragilis, Agaricia tenuifolia, Montastrea annularis, Diploria sp.) ranged from 0 to 44%. To examine whether OM contribution varied with distance from mangroves, we conducted a sponge transplant experiment that demonstrated declining mangrove contribution across three sponge species with increasing distance from the shore. These results supported the hypothesis of mangrove-coral reef nutrient linkages, providing the first evidence that mangrove inputs of OM to sessile invertebrates are substantial, accounting for 0–57% of the composition. Close

• 22. [Article] Analysis of Landsat Satellite Data to Monitor Water Quality Parameters in Tenmile Lake, Oregon

  The health of North and South Tenmile Lakes in coastal Oregon has declined since the introduction of invasive species of fish and plant life in the 1920s. The lakes are now on the Federal Clean Water Act ...

  Citation × Citation Citation Abstract Copy Title: Analysis of Landsat Satellite Data to Monitor Water Quality Parameters in Tenmile Lake, Oregon Author: Waxter, Michael T. Year: 2014 The health of North and South Tenmile Lakes in coastal Oregon has declined since the introduction of invasive species of fish and plant life in the 1920s. The lakes are now on the Federal Clean Water Act list of impaired water bodies due, in part, to a lack of dissolved oxygen and Hazardous Algae Blooms (HAB) blooms that occur during June through September. In this report we discuss the possibility of detecting and monitoring these blooms using satellite measurements of water surface color. In-situ measurements obtained from the Tenmile Lakes Basin Partnership were used to calibrate reflectance from the Thematic Mapper on the Landsat 5 satellite. Results show a good linear correlation between turbidity and radiance, which are inversely related in algal dominated lakes. Additionally, a correlation between biovolume and reflectance was obtained. Spatial patterns of turbidity and biovolume are observed, with large concentrations observed in lake areas with large residence times. The comparatively lowest concentrations are observed along the probable pathway of cleaner water input by creeks into the lake. However, the ability to predict turbidity and biovolume from satellite reflectance data is currently complicated by the lack of coincident in-situ and satellite data, and the limited number of spectral bands available to separate turbidity from different species of bacteria and algae. Title: Analysis of Landsat Satellite Data to Monitor Water Quality Parameters in Tenmile Lake, Oregon Author: Waxter, Michael T. Year: 2014 The health of North and South Tenmile Lakes in coastal Oregon has declined since the introduction of invasive species of fish and plant life in the 1920s. The lakes are now on the Federal Clean Water Act list of impaired water bodies due, in part, to a lack of dissolved oxygen and Hazardous Algae Blooms (HAB) blooms that occur during June through September. In this report we discuss the possibility of detecting and monitoring these blooms using satellite measurements of water surface color. In-situ measurements obtained from the Tenmile Lakes Basin Partnership were used to calibrate reflectance from the Thematic Mapper on the Landsat 5 satellite. Results show a good linear correlation between turbidity and radiance, which are inversely related in algal dominated lakes. Additionally, a correlation between biovolume and reflectance was obtained. Spatial patterns of turbidity and biovolume are observed, with large concentrations observed in lake areas with large residence times. The comparatively lowest concentrations are observed along the probable pathway of cleaner water input by creeks into the lake. However, the ability to predict turbidity and biovolume from satellite reflectance data is currently complicated by the lack of coincident in-situ and satellite data, and the limited number of spectral bands available to separate turbidity from different species of bacteria and algae. Close

• 23. [Article] Studies of ecological factors that affect the population and distribution of the western gray squirrel in northcentral Oregon

  The western gray squirrel (Sciurus griseus griseus Ord) occur only in the Pacific states and in a small corner of extreme western Nevada. Field studies of aspects of the ecology of the most widely distributed ...

  Citation × Citation Citation Abstract Copy Title: Studies of ecological factors that affect the population and distribution of the western gray squirrel in northcentral Oregon Author: Foster, Susan Ann Year: 1992 The western gray squirrel (Sciurus griseus griseus Ord) occur only in the Pacific states and in a small corner of extreme western Nevada. Field studies of aspects of the ecology of the most widely distributed subspecies of western gray squirrel (S. griseus) were conducted at three sites in the ponderosa pine-Oregon white oak zone on the eastern slopes of Mt. Hood, Wasco County, Oregon, between 1981 and 1989. From 1981 through 1987, a Hunter Cooperation Program provided remains of squirrels shot during the annual late summer-early autumn hunting season. Other data were gathered through capture and release studies, radiotelemetry, and habitat analysis. The age structure of these populations, as revealed by examination of squirrels killed by hunters, is predominantly mature animals. Also, the population as estimated by hunter success during the Hunter Cooperation Program and by field observations appears to be declining. In the sites studied, western gray squirrels have two seasons of reproductive activity annually. Some individuals mate from January through March; their young emerge from the nest in May and June. Other individuals mate during May and June; their young emerge in August and September. The latter matings are usually the most productive. Analysis of nest trees and their surroundings revealed that nests are most likely to be located in mature trees that have well-developed crowns and occur in stands with a high degree of canopy closure. Nest trees were usually located within approximately 180 meters of permanent water and on sites with a south-southeasterly exposure. Home ranges of squirrels examined in this study were usually large compared to home ranges reported for this species elsewhere in its range. Given the cost of having large home ranges, it seems possible that the squirrels at these study sites exist in less than optimal ecological circumstances. Human factors that may have contributed to the decline of the populations in this study may include the nature of logging activities and the timing of the annual hunting season. Limiting factors other than human activities may include competition with other mast-consuming animals (mule deer, elk, wild turkeys, and three other species of squirrels) for limited and variable mast crops. Title: Studies of ecological factors that affect the population and distribution of the western gray squirrel in northcentral Oregon Author: Foster, Susan Ann Year: 1992 The western gray squirrel (Sciurus griseus griseus Ord) occur only in the Pacific states and in a small corner of extreme western Nevada. Field studies of aspects of the ecology of the most widely distributed subspecies of western gray squirrel (S. griseus) were conducted at three sites in the ponderosa pine-Oregon white oak zone on the eastern slopes of Mt. Hood, Wasco County, Oregon, between 1981 and 1989. From 1981 through 1987, a Hunter Cooperation Program provided remains of squirrels shot during the annual late summer-early autumn hunting season. Other data were gathered through capture and release studies, radiotelemetry, and habitat analysis. The age structure of these populations, as revealed by examination of squirrels killed by hunters, is predominantly mature animals. Also, the population as estimated by hunter success during the Hunter Cooperation Program and by field observations appears to be declining. In the sites studied, western gray squirrels have two seasons of reproductive activity annually. Some individuals mate from January through March; their young emerge from the nest in May and June. Other individuals mate during May and June; their young emerge in August and September. The latter matings are usually the most productive. Analysis of nest trees and their surroundings revealed that nests are most likely to be located in mature trees that have well-developed crowns and occur in stands with a high degree of canopy closure. Nest trees were usually located within approximately 180 meters of permanent water and on sites with a south-southeasterly exposure. Home ranges of squirrels examined in this study were usually large compared to home ranges reported for this species elsewhere in its range. Given the cost of having large home ranges, it seems possible that the squirrels at these study sites exist in less than optimal ecological circumstances. Human factors that may have contributed to the decline of the populations in this study may include the nature of logging activities and the timing of the annual hunting season. Limiting factors other than human activities may include competition with other mast-consuming animals (mule deer, elk, wild turkeys, and three other species of squirrels) for limited and variable mast crops. Close

• 24. [Article] Quantifying Resilience of Multiple Ecosystem Services and Biodiversity in a Temperate Forest Landscape

  Resilience is increasingly being considered as a new paradigm of forest management among scientists, practitioners, and policymakers. However, metrics of resilience to environmental change are lacking. ...

  Citation × Citation Citation Abstract Copy Title: Quantifying Resilience of Multiple Ecosystem Services and Biodiversity in a Temperate Forest Landscape Author: Cantarello, Elena, Newton, Adrian C., Martin, Phillip A., Evans, Paul M., Gosal, Arjan, Lucash, Melissa S. Year: 2017 Resilience is increasingly being considered as a new paradigm of forest management among scientists, practitioners, and policymakers. However, metrics of resilience to environmental change are lacking. Faced with novel disturbances, forests may be able to sustain existing ecosystem services and biodiversity by exhibiting resilience, or alternatively these attributes may undergo either a linear or nonlinear decline. Here we provide a novel quantitative approach for assessing forest resilience that focuses on three components of resilience, namely resistance, recovery, and net change, using a spatially explicit model of forest dynamics. Under the pulse set scenarios, we explored the resilience of nine ecosystem services and four biodiversity measures following a one-off disturbance applied to an increasing percentage of forest area. Under the pulse + press set scenarios, the six disturbance intensities explored during the pulse set were followed by a continuous disturbance. We detected thresholds in net change under pulse + press scenarios for the majority of the ecosystem services and biodiversity measures, which started to decline sharply when disturbance affected >40% of the landscape. Thresholds in net change were not observed under the pulse scenarios, with the exception of timber volume and ground flora species richness. Thresholds were most pronounced for aboveground biomass, timber volume with respect to the ecosystem services, and ectomycorrhizal fungi and ground flora species richness with respect to the biodiversity measures. Synthesis and applications. The approach presented here illustrates how the multidimensionality of stability research in ecology can be addressed and how forest resilience can be estimated in practice. Managers should adopt specific management actions to support each of the three components of resilience separately, as these may respond differently to disturbance. In addition, management interventions aiming to deliver resilience should incorporate an assessment of both pulse and press disturbances to ensure detection of threshold responses to disturbance, so that appropriate management interventions can be identified. Title: Quantifying Resilience of Multiple Ecosystem Services and Biodiversity in a Temperate Forest Landscape Author: Cantarello, Elena, Newton, Adrian C., Martin, Phillip A., Evans, Paul M., Gosal, Arjan, Lucash, Melissa S. Year: 2017 Resilience is increasingly being considered as a new paradigm of forest management among scientists, practitioners, and policymakers. However, metrics of resilience to environmental change are lacking. Faced with novel disturbances, forests may be able to sustain existing ecosystem services and biodiversity by exhibiting resilience, or alternatively these attributes may undergo either a linear or nonlinear decline. Here we provide a novel quantitative approach for assessing forest resilience that focuses on three components of resilience, namely resistance, recovery, and net change, using a spatially explicit model of forest dynamics. Under the pulse set scenarios, we explored the resilience of nine ecosystem services and four biodiversity measures following a one-off disturbance applied to an increasing percentage of forest area. Under the pulse + press set scenarios, the six disturbance intensities explored during the pulse set were followed by a continuous disturbance. We detected thresholds in net change under pulse + press scenarios for the majority of the ecosystem services and biodiversity measures, which started to decline sharply when disturbance affected >40% of the landscape. Thresholds in net change were not observed under the pulse scenarios, with the exception of timber volume and ground flora species richness. Thresholds were most pronounced for aboveground biomass, timber volume with respect to the ecosystem services, and ectomycorrhizal fungi and ground flora species richness with respect to the biodiversity measures. Synthesis and applications. The approach presented here illustrates how the multidimensionality of stability research in ecology can be addressed and how forest resilience can be estimated in practice. Managers should adopt specific management actions to support each of the three components of resilience separately, as these may respond differently to disturbance. In addition, management interventions aiming to deliver resilience should incorporate an assessment of both pulse and press disturbances to ensure detection of threshold responses to disturbance, so that appropriate management interventions can be identified. Close

• 25. [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

• 26. [Article] Phenotypic and Mutational Consequences of Mitochondrial ETC Genetic Damage

  Genetic mutation is the ultimate source of new phenotypic variation in populations. The importance of mutation cannot be understated, and constitutes a significant evolutionary force. Although single mutations ...

  Citation × Citation Citation Abstract Copy Title: Phenotypic and Mutational Consequences of Mitochondrial ETC Genetic Damage Author: Lue, Michael James Year: 2015 Genetic mutation is the ultimate source of new phenotypic variation in populations. The importance of mutation cannot be understated, and constitutes a significant evolutionary force. Although single mutations may have little to no impact on organismal performance or fitness, when multiplied across the total number of potential sites within the genome, mutation can have a large impact. Accurate measurement of the rates, molecular mechanisms, and distributions of effects of mutations are critical for many applications of evolutionary theory. Despite the importance of both deleterious and beneficial mutations, their genome-wide patterns and phenotypic consequences are poorly understood when considering the mitochondrial genome. Mitochondria are organelles that are essential for eukaryotic life. They contain their own genome and generate bioenergy (ATP) necessary to sustain life via the electron transport chain (ETC). Because of their role in eukaryotic physiology, understanding how mitochondrial genetic and phenotypic variation can impact populations and evolutionary outcomes is essential. Past studies have implicated DNA-damaging oxidative stress as a source of mutations within somatic tissue, but there is a gap in knowledge regarding its role in heritable damage within the germ line. In this thesis, I aimed to test this possibility by characterizing the phenotypic and mutational consequences of high intracellular ROS levels caused by mitochondrial ETC genetic damage. I performed experiments using Caenorhabditis elegans ETC mutant, gas-1, and mutation-accumulation (MA) lines generated from this ancestral genotype. I quantified organismal fitness (fecundity and longevity), reactive oxygen species (ROS) levels, mitochondrial membrane potential (delta psi m), and ATP levels in these lines, and compared the results to those from a set of wildtype control lines. I begin with a general introduction to the hypothesis and the C. elegans system in Chapter I. In Chapter II, I report the findings from this work. In short, I found that while gas-1 MA lines began the experiment with low lifetime fecundity in comparison to the wildtype strain, their fecundity showed no further decline as expected, and even exhibited higher fecundity levels on days 3-5 of reproduction relative to the gas-1 progenitor. The gas-1 progenitor exhibited higher rates of ROS compared to wildtype, whereas the MA lines reverted back to wildtype levels; a similar pattern was observed for delta psi m, while ATP levels were low in the gas-1 progenitor and remained low in the MA lines. I interpret these findings in light of high-throughput sequencing results from these lines showing that, while nuclear and mitochondrial DNA mutation rates were equal to wildtype in these lines, the genomic pattern of mutation was highly nonrandom and indicative of selection for beneficial or compensatory sequence changes. Because ROS levels declined to wildtype in the evolved (MA), this study was unable to address whether ROS is a major contributor to heritable mutation in this system. I hypothesize that, in addition to their putatively compensatory genetic changes, gas-1 lineages experienced physiological compensation allowing them to survive, and that this was associated with a "slow living" phenotype. In Chapter III, I summarize general conclusions and implications of this study and end by providing suggestions for further study. Title: Phenotypic and Mutational Consequences of Mitochondrial ETC Genetic Damage Author: Lue, Michael James Year: 2015 Genetic mutation is the ultimate source of new phenotypic variation in populations. The importance of mutation cannot be understated, and constitutes a significant evolutionary force. Although single mutations may have little to no impact on organismal performance or fitness, when multiplied across the total number of potential sites within the genome, mutation can have a large impact. Accurate measurement of the rates, molecular mechanisms, and distributions of effects of mutations are critical for many applications of evolutionary theory. Despite the importance of both deleterious and beneficial mutations, their genome-wide patterns and phenotypic consequences are poorly understood when considering the mitochondrial genome. Mitochondria are organelles that are essential for eukaryotic life. They contain their own genome and generate bioenergy (ATP) necessary to sustain life via the electron transport chain (ETC). Because of their role in eukaryotic physiology, understanding how mitochondrial genetic and phenotypic variation can impact populations and evolutionary outcomes is essential. Past studies have implicated DNA-damaging oxidative stress as a source of mutations within somatic tissue, but there is a gap in knowledge regarding its role in heritable damage within the germ line. In this thesis, I aimed to test this possibility by characterizing the phenotypic and mutational consequences of high intracellular ROS levels caused by mitochondrial ETC genetic damage. I performed experiments using Caenorhabditis elegans ETC mutant, gas-1, and mutation-accumulation (MA) lines generated from this ancestral genotype. I quantified organismal fitness (fecundity and longevity), reactive oxygen species (ROS) levels, mitochondrial membrane potential (delta psi m), and ATP levels in these lines, and compared the results to those from a set of wildtype control lines. I begin with a general introduction to the hypothesis and the C. elegans system in Chapter I. In Chapter II, I report the findings from this work. In short, I found that while gas-1 MA lines began the experiment with low lifetime fecundity in comparison to the wildtype strain, their fecundity showed no further decline as expected, and even exhibited higher fecundity levels on days 3-5 of reproduction relative to the gas-1 progenitor. The gas-1 progenitor exhibited higher rates of ROS compared to wildtype, whereas the MA lines reverted back to wildtype levels; a similar pattern was observed for delta psi m, while ATP levels were low in the gas-1 progenitor and remained low in the MA lines. I interpret these findings in light of high-throughput sequencing results from these lines showing that, while nuclear and mitochondrial DNA mutation rates were equal to wildtype in these lines, the genomic pattern of mutation was highly nonrandom and indicative of selection for beneficial or compensatory sequence changes. Because ROS levels declined to wildtype in the evolved (MA), this study was unable to address whether ROS is a major contributor to heritable mutation in this system. I hypothesize that, in addition to their putatively compensatory genetic changes, gas-1 lineages experienced physiological compensation allowing them to survive, and that this was associated with a "slow living" phenotype. In Chapter III, I summarize general conclusions and implications of this study and end by providing suggestions for further study. Close

• 27. [Article] Quantifying the Impacts of a Novel Predator: The Distinctive Case of the Oregon Spotted Frog (<i>Rana pretiosa</i>) and the Invasive American Bullfrog (<i>Rana (Aquarana) catesbeiana</i>)

  The decline of the Oregon Spotted Frog (Rana pretiosa), a Pacific Northwest endemic now federally listed as threatened, has been attributed to several aspects of ecosystem alteration, primarily habitat ...

  Citation × Citation Citation Abstract Copy Title: Quantifying the Impacts of a Novel Predator: The Distinctive Case of the Oregon Spotted Frog (<i>Rana pretiosa</i>) and the Invasive American Bullfrog (<i>Rana (Aquarana) catesbeiana</i>) Author: Tidwell, Kyle Scott Year: 2017 The decline of the Oregon Spotted Frog (Rana pretiosa), a Pacific Northwest endemic now federally listed as threatened, has been attributed to several aspects of ecosystem alteration, primarily habitat degradation and loss. The introduced American Bullfrog (Rana (Aquarana) catesbeiana) has been widely implicated in those declines, but the basis of that contention has been difficult to characterize. The bullfrog occurring at every site of recent Oregon Spotted Frog extirpation has focused concern about its impact. Here, I present a suite of interconnected studies that examine the behavioral ecology of both species to better understand the potential for bullfrog-mediated Oregon Spotted Frog extirpation. I quantified Oregon Spotted Frog anti-predator behavior from the only known population successfully co-occurring with bullfrogs (Conboy Lake) and a population devoid of bullfrog impact (Big Marsh), and compared these behaviors to the predatory traits of the bullfrog. The initial study revealed that captive-reared individuals from the Oregon Spotted Frog population that has successfully co-occurred with bullfrogs respond faster to a predatory stimulus (measured as latency to response) than Oregon Spotted Frogs from a population not to exposed to bullfrogs. Subsequent field investigations of the approach distance allowed by a predator stimulus before taking evasive action (termed the flight initiation distance: FID) conducted with the Oregon Spotted Frog population co-occurring with bullfrogs first demonstrated that FID of recently metamorphosed bullfrogs is consistently greater than that of recently metamorphosed Oregon Spotted Frogs. Further, examination of FID across all post-metamorphic age classes of Oregon Spotted Frogs revealed that older frogs do not allow as close approach as recently metamorphosed Oregon Spotted Frogs. This age class shift in FID did not occur in the Oregon Spotted Frog population not exposed to bullfrogs. In the latter population, FID did not differ among age classes. Since the bullfrog might be driving this age-based change in anti-predator behavior, I explored the variation in strike distance of bullfrogs from the site of co-occurrence in both the field and laboratory to determine the extent of overlap with Oregon Spotted Frog FID. I found that the bullfrog strike distance significantly overlaps the FID of all ages of Oregon Spotted Frogs from the bullfrog-free site but only that of youngest (recently metamorphosed) frogs at the site of co-occurrence. Older Oregon Spotted Frogs from the site of co-occurrence generally escaped at distances greater than the strike distance of bullfrogs. I also collected > 880 bullfrogs from the site of co-occurrence and analyzed the stomach contents to assess their dietary trends. I found that bullfrogs consume Oregon Spotted Frogs at the site, but do not eat the larger (older) frogs. Moreover, the body size ratio between Oregon Spotted Frogs as prey and bullfrogs as predators suggests that nearly all of the adult size distribution of bullfrogs at Conboy would be incapable of preying on adult Oregon Spotted Frogs. Collectively, these studies strongly suggest that bullfrogs have altered the escape behavior of Oregon Spotted Frogs at Conboy Lake and that most adult Oregon Spotted Frogs at Conboy may have a size-based release from predation by bullfrogs. Implicit in this finding is that bullfrogs may pose a real threat via predation to other Oregon Spotted Frog populations with which they might come into contact where the distribution of bullfrog body sizes differ substantially from that at Conboy Lake. Title: Quantifying the Impacts of a Novel Predator: The Distinctive Case of the Oregon Spotted Frog (<i>Rana pretiosa</i>) and the Invasive American Bullfrog (<i>Rana (Aquarana) catesbeiana</i>) Author: Tidwell, Kyle Scott Year: 2017 The decline of the Oregon Spotted Frog (Rana pretiosa), a Pacific Northwest endemic now federally listed as threatened, has been attributed to several aspects of ecosystem alteration, primarily habitat degradation and loss. The introduced American Bullfrog (Rana (Aquarana) catesbeiana) has been widely implicated in those declines, but the basis of that contention has been difficult to characterize. The bullfrog occurring at every site of recent Oregon Spotted Frog extirpation has focused concern about its impact. Here, I present a suite of interconnected studies that examine the behavioral ecology of both species to better understand the potential for bullfrog-mediated Oregon Spotted Frog extirpation. I quantified Oregon Spotted Frog anti-predator behavior from the only known population successfully co-occurring with bullfrogs (Conboy Lake) and a population devoid of bullfrog impact (Big Marsh), and compared these behaviors to the predatory traits of the bullfrog. The initial study revealed that captive-reared individuals from the Oregon Spotted Frog population that has successfully co-occurred with bullfrogs respond faster to a predatory stimulus (measured as latency to response) than Oregon Spotted Frogs from a population not to exposed to bullfrogs. Subsequent field investigations of the approach distance allowed by a predator stimulus before taking evasive action (termed the flight initiation distance: FID) conducted with the Oregon Spotted Frog population co-occurring with bullfrogs first demonstrated that FID of recently metamorphosed bullfrogs is consistently greater than that of recently metamorphosed Oregon Spotted Frogs. Further, examination of FID across all post-metamorphic age classes of Oregon Spotted Frogs revealed that older frogs do not allow as close approach as recently metamorphosed Oregon Spotted Frogs. This age class shift in FID did not occur in the Oregon Spotted Frog population not exposed to bullfrogs. In the latter population, FID did not differ among age classes. Since the bullfrog might be driving this age-based change in anti-predator behavior, I explored the variation in strike distance of bullfrogs from the site of co-occurrence in both the field and laboratory to determine the extent of overlap with Oregon Spotted Frog FID. I found that the bullfrog strike distance significantly overlaps the FID of all ages of Oregon Spotted Frogs from the bullfrog-free site but only that of youngest (recently metamorphosed) frogs at the site of co-occurrence. Older Oregon Spotted Frogs from the site of co-occurrence generally escaped at distances greater than the strike distance of bullfrogs. I also collected > 880 bullfrogs from the site of co-occurrence and analyzed the stomach contents to assess their dietary trends. I found that bullfrogs consume Oregon Spotted Frogs at the site, but do not eat the larger (older) frogs. Moreover, the body size ratio between Oregon Spotted Frogs as prey and bullfrogs as predators suggests that nearly all of the adult size distribution of bullfrogs at Conboy would be incapable of preying on adult Oregon Spotted Frogs. Collectively, these studies strongly suggest that bullfrogs have altered the escape behavior of Oregon Spotted Frogs at Conboy Lake and that most adult Oregon Spotted Frogs at Conboy may have a size-based release from predation by bullfrogs. Implicit in this finding is that bullfrogs may pose a real threat via predation to other Oregon Spotted Frog populations with which they might come into contact where the distribution of bullfrog body sizes differ substantially from that at Conboy Lake. Close

• 28. [Article] Comparing Twenty-Four Years of Forest Change in Two Communities of Mexico's Meseta Purépecha Using Multi-Spectral Satellite Imagery

  The Meseta Purepecha, a volcanic plateau in the Mexican state of Michoacan, is home to one of the most species-rich pine forests in the world. Recent increases in demand for forest products has put added ...

  Citation × Citation Citation Abstract Copy Title: Comparing Twenty-Four Years of Forest Change in Two Communities of Mexico's Meseta Purépecha Using Multi-Spectral Satellite Imagery Author: Martin, Kevin Scott Year: 2004 The Meseta Purepecha, a volcanic plateau in the Mexican state of Michoacan, is home to one of the most species-rich pine forests in the world. Recent increases in demand for forest products has put added pressure on these resources. Though existing research has suggested significant deforestation in the Meseta, there is little information identifying specific areas of decline. This study focuses on two indigenous communities in the Meseta-Pichataro and Sevina. Both communities have long relied on wood as an economic resource. However, the two communities have reacted differently to increased demand for forest resources. The purpose of this study is to identify the differences in the rate and extent of forest change between Pichataro and Sevina. Three dates of Landsat satellite images - 1976, 1986, and 2000-were used to identify changes in the Meseta's forests. Supervised classification was used to classify the 2000 image into forested and non-forested areas. Change detection was performed on the 1976 through 2000 images to identify areas of forest clearing and forest regrowth. The 2000 image was then used as a reference for generating maps of historic forest extent based on the change detection results. Results show that between 1986 and 2000, Sevina cleared approximately 16% of its forested land between while Pichataro experienced a net gain of 7%. In the same period, 93% of the deforestation in the combined study area occurred within the community boundary of Sevina, which manages only 35% of the study area forests. Sevina's remaining forests are also more isolated and fragmented than the forests of Pichataro. The differences between the two communities appear related to management practices. Sevina has relied on larger-scale timber harvesting to derive economic benefits from its forests. Pichataro has focused on local harvesting and value-added production. Title: Comparing Twenty-Four Years of Forest Change in Two Communities of Mexico's Meseta Purépecha Using Multi-Spectral Satellite Imagery Author: Martin, Kevin Scott Year: 2004 The Meseta Purepecha, a volcanic plateau in the Mexican state of Michoacan, is home to one of the most species-rich pine forests in the world. Recent increases in demand for forest products has put added pressure on these resources. Though existing research has suggested significant deforestation in the Meseta, there is little information identifying specific areas of decline. This study focuses on two indigenous communities in the Meseta-Pichataro and Sevina. Both communities have long relied on wood as an economic resource. However, the two communities have reacted differently to increased demand for forest resources. The purpose of this study is to identify the differences in the rate and extent of forest change between Pichataro and Sevina. Three dates of Landsat satellite images - 1976, 1986, and 2000-were used to identify changes in the Meseta's forests. Supervised classification was used to classify the 2000 image into forested and non-forested areas. Change detection was performed on the 1976 through 2000 images to identify areas of forest clearing and forest regrowth. The 2000 image was then used as a reference for generating maps of historic forest extent based on the change detection results. Results show that between 1986 and 2000, Sevina cleared approximately 16% of its forested land between while Pichataro experienced a net gain of 7%. In the same period, 93% of the deforestation in the combined study area occurred within the community boundary of Sevina, which manages only 35% of the study area forests. Sevina's remaining forests are also more isolated and fragmented than the forests of Pichataro. The differences between the two communities appear related to management practices. Sevina has relied on larger-scale timber harvesting to derive economic benefits from its forests. Pichataro has focused on local harvesting and value-added production. Close

• 29. [Article] Body Size, Nest Predation, and Reproductive Patterns in Brown Thrashers and Other Mimids

  We describe the breeding biology of Brown Thrashers (Toxostoma rufum) in Kansas, and combine this with data from other temperate-zone breeding Mimidae to characterize reproductive patterns in this group. ...

  Citation × Citation Citation Abstract Copy Title: Body Size, Nest Predation, and Reproductive Patterns in Brown Thrashers and Other Mimids Author: Murphy, Michael T., Fleischer, Robert C. Year: 1986 We describe the breeding biology of Brown Thrashers (Toxostoma rufum) in Kansas, and combine this with data from other temperate-zone breeding Mimidae to characterize reproductive patterns in this group. Brown Thrashers produced clutches of 3 to 6 eggs, but clutches of 4 predominated. Most pairs raised 2 broods per year. Incubation required between 13 and 14 days, and hatching was usually asynchronous. Though sample size was small, asynchrony appeared to increase in frequency towards the end of the breeding season. Nestlings grew rapidly, and in 10 days or less most pre-fledgingg rowthw as completed. Young fledgedn ormallya t 11 days of age at 65% of aduli weight, but with the tarsi near adult size. Nestlings starved in 27% of nests, but predators were responsible for most nest failures. Overall nest success was 43%. Brown Thrashers are typical of other temperate-zone mimids. Modal clutch sizes are of either 3 or 4 eggs and all species are multi-brooded. Mimids from the southwestern United States and Mexico lay normally 3 egg clutches, but elsewhere 4 eggs are most common. Incubation length and nestling growth rate vary significantly with adult weight, but on average, incubation is 3 days shorter and nestlings grow 36% faster than predicted. Relative incubation length and relative fledging weight both declined significantly with adult weight, whereas daily nest mortality rate increased significantly with adult size. Although our data are consistent with the hypothesis that heavy nest predation has favored rapid nestling growth and completion of development outside of the nest, rapid growth may also function in brood reduction. Present data are insufficient to exclude conclusively either factor in the evolution of rapid development in mimids. Title: Body Size, Nest Predation, and Reproductive Patterns in Brown Thrashers and Other Mimids Author: Murphy, Michael T., Fleischer, Robert C. Year: 1986 We describe the breeding biology of Brown Thrashers (Toxostoma rufum) in Kansas, and combine this with data from other temperate-zone breeding Mimidae to characterize reproductive patterns in this group. Brown Thrashers produced clutches of 3 to 6 eggs, but clutches of 4 predominated. Most pairs raised 2 broods per year. Incubation required between 13 and 14 days, and hatching was usually asynchronous. Though sample size was small, asynchrony appeared to increase in frequency towards the end of the breeding season. Nestlings grew rapidly, and in 10 days or less most pre-fledgingg rowthw as completed. Young fledgedn ormallya t 11 days of age at 65% of aduli weight, but with the tarsi near adult size. Nestlings starved in 27% of nests, but predators were responsible for most nest failures. Overall nest success was 43%. Brown Thrashers are typical of other temperate-zone mimids. Modal clutch sizes are of either 3 or 4 eggs and all species are multi-brooded. Mimids from the southwestern United States and Mexico lay normally 3 egg clutches, but elsewhere 4 eggs are most common. Incubation length and nestling growth rate vary significantly with adult weight, but on average, incubation is 3 days shorter and nestlings grow 36% faster than predicted. Relative incubation length and relative fledging weight both declined significantly with adult weight, whereas daily nest mortality rate increased significantly with adult size. Although our data are consistent with the hypothesis that heavy nest predation has favored rapid nestling growth and completion of development outside of the nest, rapid growth may also function in brood reduction. Present data are insufficient to exclude conclusively either factor in the evolution of rapid development in mimids. Close

• 30. [Article] Multimodel Simulations of Forest Harvesting Effects on Long-Term Productivity and CN Cycling in Aspen Forests

  The effects of forest management on soil carbon (C) and nitrogen (N) dynamics vary by harvest type and species. We simulated long-term effects of bole-only harvesting of aspen (Populus tremuloides) on ...

  Citation × Citation Citation Abstract Copy Title: Multimodel Simulations of Forest Harvesting Effects on Long-Term Productivity and CN Cycling in Aspen Forests Author: Wang, Fugui, Mladenoff, David J., Forrester, Jodi A., Blanco, Juan A., Scheller, Robert M., Peckham, Scott D., Keough, Cindy, Lucash, Melissa S. Year: 2014 The effects of forest management on soil carbon (C) and nitrogen (N) dynamics vary by harvest type and species. We simulated long-term effects of bole-only harvesting of aspen (Populus tremuloides) on stand productivity and interaction of CN cycles with a multiple model approach. Five models, Biome-BGC, CENTURY, FORECAST, LANDIS-II with Century-based soil dynamics, and PnET-CN, were run for 350 years with seven harvesting events on nutrient-poor, sandy soils representing northwestern Wisconsin, USA. Twenty CN state and flux variables were summarized from the models' outputs, and statistically analyzed using ordination and variance analysis methods. The multiple models' averages suggest that bole-only harvest would not significantly affect long-term site productivity of aspen, though declines in soil organic matter and soil N were significant. Along with direct N removal by harvesting, extensive leaching after harvesting before canopy closure was another major cause of N depletion. These five models were notably different in output values of the 20 variables examined, although there were some similarities for certain variables. PnET-CN produced unique results for every variable, and CENTURY showed fewer outliers and similar temporal patterns to the mean of all models. In general, this study demonstrated that when there are no site-specific data for fine-scale calibration and evaluation of a single model, the multiple model approach may be a more robust approach for long-term simulations. In addition, multi-modeling may also improve the calibration and evaluation of an individual model. Title: Multimodel Simulations of Forest Harvesting Effects on Long-Term Productivity and CN Cycling in Aspen Forests Author: Wang, Fugui, Mladenoff, David J., Forrester, Jodi A., Blanco, Juan A., Scheller, Robert M., Peckham, Scott D., Keough, Cindy, Lucash, Melissa S. Year: 2014 The effects of forest management on soil carbon (C) and nitrogen (N) dynamics vary by harvest type and species. We simulated long-term effects of bole-only harvesting of aspen (Populus tremuloides) on stand productivity and interaction of CN cycles with a multiple model approach. Five models, Biome-BGC, CENTURY, FORECAST, LANDIS-II with Century-based soil dynamics, and PnET-CN, were run for 350 years with seven harvesting events on nutrient-poor, sandy soils representing northwestern Wisconsin, USA. Twenty CN state and flux variables were summarized from the models' outputs, and statistically analyzed using ordination and variance analysis methods. The multiple models' averages suggest that bole-only harvest would not significantly affect long-term site productivity of aspen, though declines in soil organic matter and soil N were significant. Along with direct N removal by harvesting, extensive leaching after harvesting before canopy closure was another major cause of N depletion. These five models were notably different in output values of the 20 variables examined, although there were some similarities for certain variables. PnET-CN produced unique results for every variable, and CENTURY showed fewer outliers and similar temporal patterns to the mean of all models. In general, this study demonstrated that when there are no site-specific data for fine-scale calibration and evaluation of a single model, the multiple model approach may be a more robust approach for long-term simulations. In addition, multi-modeling may also improve the calibration and evaluation of an individual model. Close

• 31. [Article] Divergent trends in ecosystem services under different climate-management futures in a fire-prone forest landscape

  While ecosystem services and climate change are often examined independently, quantitative assessments integrating these fields are needed to inform future land management decisions. Using climate-informed ...

  Citation × Citation Citation Abstract Copy Title: Divergent trends in ecosystem services under different climate-management futures in a fire-prone forest landscape Author: Halofsky, Joshua S., Halofsky, Jessica E., Hemstrom, Miles A., Morzillo, Anita T., Zhou, Xiaoping, Donato, Daniel C. Year: 2017 While ecosystem services and climate change are often examined independently, quantitative assessments integrating these fields are needed to inform future land management decisions. Using climate-informed state-and-transition simulations, we examined projected trends and trade-offs for a suite of ecosystem services under four climate change scenarios and two management scenarios (active management emphasizing fuel treatments and no management other than fire suppression) in a fire-prone landscape of dry and moist mixed-conifer forests in central Oregon, USA. Focal ecosystem services included fire potential (regulating service), timber volume (provisioning service), and potential wildlife habitat (supporting service). Projections without climate change suggested active management in dry mixed-conifer forests would create more open forest structures, reduce crown fire potential, and maintain timber stocks, while in moist mixed-conifer forests, active management would reduce crown fire potential but at the expense of timber stocks. When climate change was considered, however, trends in most ecosystem services changed substantially, with large increases in wildfire area predominating broad-scale trends in outputs, regardless of management approach (e.g., strong declines in timber stocks and habitat for closed-forest wildlife species). Active management still had an influence under a changing climate, but as a moderator of the strong climate-driven trends rather than being a principal driver of ecosystem service outputs. These results suggest projections of future ecosystem services that do not consider climate change may result in unrealistic expectations of benefits. Title: Divergent trends in ecosystem services under different climate-management futures in a fire-prone forest landscape Author: Halofsky, Joshua S., Halofsky, Jessica E., Hemstrom, Miles A., Morzillo, Anita T., Zhou, Xiaoping, Donato, Daniel C. Year: 2017 While ecosystem services and climate change are often examined independently, quantitative assessments integrating these fields are needed to inform future land management decisions. Using climate-informed state-and-transition simulations, we examined projected trends and trade-offs for a suite of ecosystem services under four climate change scenarios and two management scenarios (active management emphasizing fuel treatments and no management other than fire suppression) in a fire-prone landscape of dry and moist mixed-conifer forests in central Oregon, USA. Focal ecosystem services included fire potential (regulating service), timber volume (provisioning service), and potential wildlife habitat (supporting service). Projections without climate change suggested active management in dry mixed-conifer forests would create more open forest structures, reduce crown fire potential, and maintain timber stocks, while in moist mixed-conifer forests, active management would reduce crown fire potential but at the expense of timber stocks. When climate change was considered, however, trends in most ecosystem services changed substantially, with large increases in wildfire area predominating broad-scale trends in outputs, regardless of management approach (e.g., strong declines in timber stocks and habitat for closed-forest wildlife species). Active management still had an influence under a changing climate, but as a moderator of the strong climate-driven trends rather than being a principal driver of ecosystem service outputs. These results suggest projections of future ecosystem services that do not consider climate change may result in unrealistic expectations of benefits. Close

• 32. [Article] Spatial and Temporal Patterns of Amphibian Chytrid Fungus <i>Batrachochytrium Dendrobatidis</i> Occupancy in Amphibian Habitats

  Chytrid fungi are the most ancestral of the fungi and are global in distribution. There are over 1200 species of Chytridiomycota described from freshwater, marine and terrestrial systems in temperate, ...

  Citation × Citation Citation Abstract Copy Title: Spatial and Temporal Patterns of Amphibian Chytrid Fungus <i>Batrachochytrium Dendrobatidis</i> Occupancy in Amphibian Habitats Author: Chestnut, Tara Year: 2013 Chytrid fungi are the most ancestral of the fungi and are global in distribution. There are over 1200 species of Chytridiomycota described from freshwater, marine and terrestrial systems in temperate, tropical and tundra environments. Chytridiales are characterized by a range of morphologies and share the flask- or pot-like shape of the zoosporangia, within which motile zoospores develop. Chytrids function primarily as plant saprobes and parasites, but some also parasitize animals. Chytrids are observed in conjunction with the decline of freshwater and marine algal blooms, they decompose excess pollen, and comprise the fungal flora in gut of herbivores. Some chytrids also parasitize micro-invertebrates, insects and amphibians. The amphibian chytrid fungus, Batrachochytrium dendrobatidis (Bd) is the only chytrid known to infect a vertebrate host. Bd exists free-living in the aquatic environment. Lab experiments have demonstrated Bd survival on sterilized moist sand for up to three months and it remained infective in lake water for up to seven weeks. Bd cultures can be maintained under lab conditions for several months (personal observation), which suggests Bd can survive in the environment without a host as long as nutrients are not limiting. In the aquatic environment, Bd is detected by filtering water samples to capture free-living zoospores and zoosporangia then performing a qPCR analysis. Bd has not been reliably isolated from sediments. The goal of our research was to study free-living Bd in amphibian habitats to better understand its ecology and host-pathogen dynamics. Title: Spatial and Temporal Patterns of Amphibian Chytrid Fungus <i>Batrachochytrium Dendrobatidis</i> Occupancy in Amphibian Habitats Author: Chestnut, Tara Year: 2013 Chytrid fungi are the most ancestral of the fungi and are global in distribution. There are over 1200 species of Chytridiomycota described from freshwater, marine and terrestrial systems in temperate, tropical and tundra environments. Chytridiales are characterized by a range of morphologies and share the flask- or pot-like shape of the zoosporangia, within which motile zoospores develop. Chytrids function primarily as plant saprobes and parasites, but some also parasitize animals. Chytrids are observed in conjunction with the decline of freshwater and marine algal blooms, they decompose excess pollen, and comprise the fungal flora in gut of herbivores. Some chytrids also parasitize micro-invertebrates, insects and amphibians. The amphibian chytrid fungus, Batrachochytrium dendrobatidis (Bd) is the only chytrid known to infect a vertebrate host. Bd exists free-living in the aquatic environment. Lab experiments have demonstrated Bd survival on sterilized moist sand for up to three months and it remained infective in lake water for up to seven weeks. Bd cultures can be maintained under lab conditions for several months (personal observation), which suggests Bd can survive in the environment without a host as long as nutrients are not limiting. In the aquatic environment, Bd is detected by filtering water samples to capture free-living zoospores and zoosporangia then performing a qPCR analysis. Bd has not been reliably isolated from sediments. The goal of our research was to study free-living Bd in amphibian habitats to better understand its ecology and host-pathogen dynamics. Close

• 33. [Article] Influence of Wetland Landscape Structure on Duck Nest Success at Malheur National Wildlife Refuge, Oregon

  The decline of waterfowl populations and their requisite wetland habitats remains a concern. Because migratory bird refuges are often artificial landscapes of actively managed wetlands, and wildlife populations ...

  Citation × Citation Citation Abstract Copy Title: Influence of Wetland Landscape Structure on Duck Nest Success at Malheur National Wildlife Refuge, Oregon Author: Craver, Daniel Robert Year: 2010 The decline of waterfowl populations and their requisite wetland habitats remains a concern. Because migratory bird refuges are often artificial landscapes of actively managed wetlands, and wildlife populations experience their greatest change during the breeding season, refuges should be designed to maximize breeding habitat. While past nest success studies have focused on at-nest variables, new approaches are needed to evaluate the effect of composition and configuration of plant communities at the landscape scale. This study aims to quantify landscape patterns within individual refuge management units to determine influence upon historical nesting success averages of ducks at Malheur National Wildlife Refuge in southeastern Oregon. The Mayfield estimate of nest success for 8 duck species yields a survival rate of 25% for the years 1987-1998 with a range of 0-74% across 48 management units. FRAGSTATS was used to calculate a suite of 9 landscape pattern metrics per unit at the class-level for each of 3 wetland habitat classes, and at the landscape-level using all habitat types. These 36 variables were tested for association with survival rate using Pearson R correlation. Results suggest fragmentation of dry meadow habitat; patch size, complexity, and extensiveness of wet meadow habitat; and diversity of habitats across the landscape positively influence duck nest success at the scale of the individual management unit. Title: Influence of Wetland Landscape Structure on Duck Nest Success at Malheur National Wildlife Refuge, Oregon Author: Craver, Daniel Robert Year: 2010 The decline of waterfowl populations and their requisite wetland habitats remains a concern. Because migratory bird refuges are often artificial landscapes of actively managed wetlands, and wildlife populations experience their greatest change during the breeding season, refuges should be designed to maximize breeding habitat. While past nest success studies have focused on at-nest variables, new approaches are needed to evaluate the effect of composition and configuration of plant communities at the landscape scale. This study aims to quantify landscape patterns within individual refuge management units to determine influence upon historical nesting success averages of ducks at Malheur National Wildlife Refuge in southeastern Oregon. The Mayfield estimate of nest success for 8 duck species yields a survival rate of 25% for the years 1987-1998 with a range of 0-74% across 48 management units. FRAGSTATS was used to calculate a suite of 9 landscape pattern metrics per unit at the class-level for each of 3 wetland habitat classes, and at the landscape-level using all habitat types. These 36 variables were tested for association with survival rate using Pearson R correlation. Results suggest fragmentation of dry meadow habitat; patch size, complexity, and extensiveness of wet meadow habitat; and diversity of habitats across the landscape positively influence duck nest success at the scale of the individual management unit. Close

• 34. [Article] Causes and Consequences of Mitochondrial Variation in Caenorhabditid Nematodes

  Mitochondria are dynamic organelles that harbor their own stream-lined genome and generate much of the ATP necessary to sustain eukaryotic life via an electron transport chain (ETC). Because of the central ...

  Citation × Citation Citation Abstract Copy Title: Causes and Consequences of Mitochondrial Variation in Caenorhabditid Nematodes Author: Hicks, Kiley Ann Year: 2012 Mitochondria are dynamic organelles that harbor their own stream-lined genome and generate much of the ATP necessary to sustain eukaryotic life via an electron transport chain (ETC). Because of the central role for mitochondria in organismal physiology, mitochondrial genetic and phenotypic variation can alter organismal fitness and affect population genetic and evolutionary outcomes. Despite the far-reaching relevance of mitochondria to evolutionary processes and human health, we lack a basic understanding of the causes and consequences of mitochondrial genetic and phenotypic variation. In this thesis, I quantified mitochondrial reactive oxygen species (ROS), membrane potential (δΨM), and mitochondrial morphological traits within Caenorhabditis briggsae natural isolates and mutation-accumulation (MA) lines of both C. briggsae and Caenorhabditis elegans. Substantial natural variation was discovered for most mitochondrial form and function traits measured for a set of C. briggsae isolates known to harbor mitochondrial DNA structural variation in the form of a heteroplasmic nad5 gene deletion (nad5δ) that correlates negatively with organismal fitness. Most among-isolate phenotypic variation could be accounted for by phylogeographic clade membership rather than nad5δ level. Analysis of mitochondrial-nuclear hybrid strains provided support for both mtDNA and nuclear genetic variation as drivers of natural mitochondrial phenotype variation. An MA experimental approach revealed that average levels of both ROS and nad5δ heteroplasmy evolved in remarkably linear ways in C. briggsae maintained under extreme inbreeding. In particular, among C. briggsae isolates prone to acquiring the nad5δ deletion, nad5δ level increased to a plateau of ~50% during successive generations of MA treatment. Conversely, mitochondrial ROS level increased or declined in a strain-specific fashion, which also meant that the relationship between ROS and nad5δ was strain-specific. Further, all lines generated from the isolate with the highest starting level of nad5δ heteroplasmy went extinct prior to generation 20 of MA treatment. Patterns of among-line variance in ROS level were also strain-specific but generally did not conform to the canonical pattern of increasing among-line variance expected for MA experiments. MA lines of C. elegans that had previously been subjected to whole-genome sequencing were found to vary significantly in ROS levels but not in 8-oxo-dG content. Despite a significant positive correlation between 8-oxo-dG and ROS levels, no relationship between oxidative stress measures and base substitution rate or G-to-T transversion rate was revealed. Finally, analysis of patterns of phenotypic correlation for a suite of 24 mitochondrial traits measured in C. briggsae natural isolates support a role for ΔΨM in shaping mitochondrial dynamics, but no such role for mitochondrial ROS. Further, our study suggests a novel model of mitochondrial population dynamics dependent upon cellular environmental context and with implications for mitochondrial genome integrity. This work identifies extensive natural variation and capacity for evolution in organellar traits within multicellular eukaryotic species, with a central role for δΨM in mitochondrial dynamics that may have implications for evolutionary adaptation to thermal niches. Title: Causes and Consequences of Mitochondrial Variation in Caenorhabditid Nematodes Author: Hicks, Kiley Ann Year: 2012 Mitochondria are dynamic organelles that harbor their own stream-lined genome and generate much of the ATP necessary to sustain eukaryotic life via an electron transport chain (ETC). Because of the central role for mitochondria in organismal physiology, mitochondrial genetic and phenotypic variation can alter organismal fitness and affect population genetic and evolutionary outcomes. Despite the far-reaching relevance of mitochondria to evolutionary processes and human health, we lack a basic understanding of the causes and consequences of mitochondrial genetic and phenotypic variation. In this thesis, I quantified mitochondrial reactive oxygen species (ROS), membrane potential (δΨM), and mitochondrial morphological traits within Caenorhabditis briggsae natural isolates and mutation-accumulation (MA) lines of both C. briggsae and Caenorhabditis elegans. Substantial natural variation was discovered for most mitochondrial form and function traits measured for a set of C. briggsae isolates known to harbor mitochondrial DNA structural variation in the form of a heteroplasmic nad5 gene deletion (nad5δ) that correlates negatively with organismal fitness. Most among-isolate phenotypic variation could be accounted for by phylogeographic clade membership rather than nad5δ level. Analysis of mitochondrial-nuclear hybrid strains provided support for both mtDNA and nuclear genetic variation as drivers of natural mitochondrial phenotype variation. An MA experimental approach revealed that average levels of both ROS and nad5δ heteroplasmy evolved in remarkably linear ways in C. briggsae maintained under extreme inbreeding. In particular, among C. briggsae isolates prone to acquiring the nad5δ deletion, nad5δ level increased to a plateau of ~50% during successive generations of MA treatment. Conversely, mitochondrial ROS level increased or declined in a strain-specific fashion, which also meant that the relationship between ROS and nad5δ was strain-specific. Further, all lines generated from the isolate with the highest starting level of nad5δ heteroplasmy went extinct prior to generation 20 of MA treatment. Patterns of among-line variance in ROS level were also strain-specific but generally did not conform to the canonical pattern of increasing among-line variance expected for MA experiments. MA lines of C. elegans that had previously been subjected to whole-genome sequencing were found to vary significantly in ROS levels but not in 8-oxo-dG content. Despite a significant positive correlation between 8-oxo-dG and ROS levels, no relationship between oxidative stress measures and base substitution rate or G-to-T transversion rate was revealed. Finally, analysis of patterns of phenotypic correlation for a suite of 24 mitochondrial traits measured in C. briggsae natural isolates support a role for ΔΨM in shaping mitochondrial dynamics, but no such role for mitochondrial ROS. Further, our study suggests a novel model of mitochondrial population dynamics dependent upon cellular environmental context and with implications for mitochondrial genome integrity. This work identifies extensive natural variation and capacity for evolution in organellar traits within multicellular eukaryotic species, with a central role for δΨM in mitochondrial dynamics that may have implications for evolutionary adaptation to thermal niches. Close

• 35. [Article] Intestinal Microbiota Diversity of Pre-Smolt Steelhead (Oncorhynchus mykiss) Across Six Oregon and Washington Hatcheries

  The Pacific Northwest is known for its once-abundant wild salmonid populations that have been in decline for more than 50 years due to habitat destruction and commercial overexploitation. To compensate, ...

  Citation × Citation Citation Abstract Copy Title: Intestinal Microbiota Diversity of Pre-Smolt Steelhead (Oncorhynchus mykiss) Across Six Oregon and Washington Hatcheries Author: Yildirimer, Christina Carrell Year: 2017 The Pacific Northwest is known for its once-abundant wild salmonid populations that have been in decline for more than 50 years due to habitat destruction and commercial overexploitation. To compensate, federal and state agencies annually release hundreds of thousands of hatchery-reared fish into the wild. However, accumulating data indicate that hatchery fish have lower fitness in natural environments, and that hatchery rearing negatively influences return rates of anadromous salmonids. Recently, mounting evidence revealed that the richness and diversity of intestinal microbial species influence host health. We examined the gut microbiota of pre-migratory hatchery-reared steelhead (Oncorhynchus mykiss) to assess microbial community diversity. The Cascade Mountains serve as an allopatric border between two distinct clades of steelhead that show significant differences in genomic and mitochondrial diversity. We identified differences in core microbiota of hatchery-reared fish that correlate with this divergent phylogeographic distribution. Steelhead sampled from hatcheries east of the Cascades had overall greater core gut microbiota diversity. These differences were found despite similarities in diet and rearing conditions. In addition to taxonomic variation across the geographic divide, we identified significant differences in metabolic pathways using PICRUSt gene prediction software. Our analysis revealed significant enrichment of genes associated with lipid metabolism in the gut microbiome of western fish. 8 of 19 individual lipid metabolism pathways were more prominent in western populations. Lipids are a vital nutritional component for teleost species involved in migration and subsequent return for spawning in natal environments. We hypothesize that the observed differences in lipid metabolism across this phylogenetic divide results from an increased ability of eastern Cascade (O. m. gairdneri) fish to utilize lipids taken in via the diet. This increased absorption and utilization would make lipids less available for the intestinal microbiota of the eastern fish, as evidenced by the lower abundance of lipid metabolism genes in the east. Our research utilizes information from the microbiome to understand the phenotypic implications occurring in segregated populations of hatchery-reared steelhead, further confirming elements of coevolution between an organism and its internal environment. Title: Intestinal Microbiota Diversity of Pre-Smolt Steelhead (Oncorhynchus mykiss) Across Six Oregon and Washington Hatcheries Author: Yildirimer, Christina Carrell Year: 2017 The Pacific Northwest is known for its once-abundant wild salmonid populations that have been in decline for more than 50 years due to habitat destruction and commercial overexploitation. To compensate, federal and state agencies annually release hundreds of thousands of hatchery-reared fish into the wild. However, accumulating data indicate that hatchery fish have lower fitness in natural environments, and that hatchery rearing negatively influences return rates of anadromous salmonids. Recently, mounting evidence revealed that the richness and diversity of intestinal microbial species influence host health. We examined the gut microbiota of pre-migratory hatchery-reared steelhead (Oncorhynchus mykiss) to assess microbial community diversity. The Cascade Mountains serve as an allopatric border between two distinct clades of steelhead that show significant differences in genomic and mitochondrial diversity. We identified differences in core microbiota of hatchery-reared fish that correlate with this divergent phylogeographic distribution. Steelhead sampled from hatcheries east of the Cascades had overall greater core gut microbiota diversity. These differences were found despite similarities in diet and rearing conditions. In addition to taxonomic variation across the geographic divide, we identified significant differences in metabolic pathways using PICRUSt gene prediction software. Our analysis revealed significant enrichment of genes associated with lipid metabolism in the gut microbiome of western fish. 8 of 19 individual lipid metabolism pathways were more prominent in western populations. Lipids are a vital nutritional component for teleost species involved in migration and subsequent return for spawning in natal environments. We hypothesize that the observed differences in lipid metabolism across this phylogenetic divide results from an increased ability of eastern Cascade (O. m. gairdneri) fish to utilize lipids taken in via the diet. This increased absorption and utilization would make lipids less available for the intestinal microbiota of the eastern fish, as evidenced by the lower abundance of lipid metabolism genes in the east. Our research utilizes information from the microbiome to understand the phenotypic implications occurring in segregated populations of hatchery-reared steelhead, further confirming elements of coevolution between an organism and its internal environment. Close

• 36. [Article] Climate Change and Land Management Impact Rangeland Condition and Sage-Grouse Habitat in Southeastern Oregon

  Contemporary pressures on sagebrush steppe from climate change, exotic species, wildfire, and land use change threaten rangeland species such as the greater sage-grouse (Centrocercus urophasianus). To ...

  Citation × Citation Citation Abstract Copy Title: Climate Change and Land Management Impact Rangeland Condition and Sage-Grouse Habitat in Southeastern Oregon Author: Creutzburg, Megan K., Henderson, Emilie B., Conklin, David R. Year: 2015 Contemporary pressures on sagebrush steppe from climate change, exotic species, wildfire, and land use change threaten rangeland species such as the greater sage-grouse (Centrocercus urophasianus). To effectively manage sagebrush steppe landscapes for long-term goals, managers need information about the potential impacts of climate change, disturbances, and management activities. We integrated information from a dynamic global vegetation model, a sage-grouse habitat climate envelope model, and a state-and-transition simulation model to project broad-scale vegetation dynamics and potential sage-grouse habitat across 23.5 million acres in southeastern Oregon. We evaluated four climate scenarios, including continuing current climate and three scenarios of global climate change, and three management scenarios, including no management, current management and a sage-grouse habitat restoration scenario. All climate change scenarios projected expansion of moist shrub steppe and contraction of dry shrub steppe, but climate scenarios varied widely in the projected extent of xeric shrub steppe, where hot, dry summer conditions are unfavorable for sage-grouse. Wildfire increased by 26% over the century under current climate due to exotic grass encroachment, and by two- to four-fold across all climate change scenarios as extreme fire years became more frequent. Exotic grasses rapidly expanded in all scenarios as large areas of the landscape initially in semi-degraded condition converted to exotic-dominated systems. Due to the combination of exotic grass invasion, juniper encroachment, and climatic unsuitability for sage-grouse, projected sage-grouse habitat declined in the first several decades, but increased in area under the three climate change scenarios later in the century, as moist shrub steppe increased and rangeland condition improved. Management activities in the model were generally unsuccessful in controlling exotic grass invasion but were effective in slowing woodland expansion. Current levels of restoration treatments were insufficient to prevent some juniper expansion, but increased treatment rates under the restoration scenario maintained juniper near initial levels in priority treatment areas. Our simulations indicate that climate change may have both positive and negative implications for maintaining sage-grouse habitat. Title: Climate Change and Land Management Impact Rangeland Condition and Sage-Grouse Habitat in Southeastern Oregon Author: Creutzburg, Megan K., Henderson, Emilie B., Conklin, David R. Year: 2015 Contemporary pressures on sagebrush steppe from climate change, exotic species, wildfire, and land use change threaten rangeland species such as the greater sage-grouse (Centrocercus urophasianus). To effectively manage sagebrush steppe landscapes for long-term goals, managers need information about the potential impacts of climate change, disturbances, and management activities. We integrated information from a dynamic global vegetation model, a sage-grouse habitat climate envelope model, and a state-and-transition simulation model to project broad-scale vegetation dynamics and potential sage-grouse habitat across 23.5 million acres in southeastern Oregon. We evaluated four climate scenarios, including continuing current climate and three scenarios of global climate change, and three management scenarios, including no management, current management and a sage-grouse habitat restoration scenario. All climate change scenarios projected expansion of moist shrub steppe and contraction of dry shrub steppe, but climate scenarios varied widely in the projected extent of xeric shrub steppe, where hot, dry summer conditions are unfavorable for sage-grouse. Wildfire increased by 26% over the century under current climate due to exotic grass encroachment, and by two- to four-fold across all climate change scenarios as extreme fire years became more frequent. Exotic grasses rapidly expanded in all scenarios as large areas of the landscape initially in semi-degraded condition converted to exotic-dominated systems. Due to the combination of exotic grass invasion, juniper encroachment, and climatic unsuitability for sage-grouse, projected sage-grouse habitat declined in the first several decades, but increased in area under the three climate change scenarios later in the century, as moist shrub steppe increased and rangeland condition improved. Management activities in the model were generally unsuccessful in controlling exotic grass invasion but were effective in slowing woodland expansion. Current levels of restoration treatments were insufficient to prevent some juniper expansion, but increased treatment rates under the restoration scenario maintained juniper near initial levels in priority treatment areas. Our simulations indicate that climate change may have both positive and negative implications for maintaining sage-grouse habitat. Close

• 37. [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

• 38. [Article] Investigations of Larval Pacific Lamprey Entosphenus tridentatus Osmotic Stress Tolerance and Occurrence in a Tidally-Influenced Estuarine Stream

  Pacific lamprey is a culturally valuable species to indigenous people, and has significant ecological importance in freshwater and marine ecosystems. Over the past several decades, constrictions in range ...

  Citation × Citation Citation Abstract Copy Title: Investigations of Larval Pacific Lamprey Entosphenus tridentatus Osmotic Stress Tolerance and Occurrence in a Tidally-Influenced Estuarine Stream Author: Silver, Gregory Shell Year: 2015 Pacific lamprey is a culturally valuable species to indigenous people, and has significant ecological importance in freshwater and marine ecosystems. Over the past several decades, constrictions in range and reductions in Pacific lamprey abundance have been observed in Western North America, and may be indicators of range-wide declines. In the face of declining populations, the U.S. Fish and Wildlife Service has partnered with tribal, state, federal, and local entities to implement a regional Pacific lamprey conservation agreement aimed at reducing threats to Pacific lamprey and improving their habitats and population status. Research needs identified in the conservation agreement include assessing larval Pacific lamprey occupancy and distribution, habitat requirements, and the limiting factors of larval distribution in the freshwater ecosystem. As part of the effort to address these knowledge gaps, we investigated the potential for larval lampreys to occur in tidally-influenced estuarine environments. Research of this type may be valuable for future conservation, management or recovery efforts of Pacific lamprey throughout its range. We employed a two-phased approach, consisting of laboratory and field components to address our aims. We first conducted a series of controlled laboratory experiments to evaluate osmotic stress tolerance and osmoregulatory status of larval Pacific lamprey exposed to a range of (1) fixed salinity in various dilutions of saltwater and (2) oscillating salinity treatments designed to simulate tidal activity. Tolerance was assessed by monitoring and comparing survival of larvae in various treatments through 96 h. Osmoregulatory status was assessed by quantifying and comparing total body water content, plasma osmolality, and plasma cation (i.e., sodium) concentrations among larvae surviving various treatments. In fixed salinity experiments, 100% survival was observed in 0‰, 6‰, 8‰ and 10‰ through 96 h, while 0% survival was observed through 48 h in 12‰, 30 h in 15‰, and 12 h in 25‰ and 35‰. In oscillating salinity experiments, on the other hand, a significant increase in survival (100%) was observed through 96 h in treatments that oscillated between 12‰ and 0‰ (freshwater) at about 6 h intervals versus fixed 12‰ salinity experiments. A significant increase in survival also occurred in oscillating 15‰ treatments (60%) versus fixed 15‰ through 96 h. Linear regression analysis indicated higher environmental salinity in laboratory experiments was significantly related to increases in plasma osmolality and plasma sodium (the most abundant osmotically active plasma cation) concentrations, and concurrent decreases in total body water content among larvae that survived various treatments. Tidal oscillations in salinity appeared to temper the desiccating effects of salinity, as changes in body water content and sodium ion concentration were less abrupt than fixed salinity treatments. These results suggest larvae cannot osmoregulate in hyperosmotic environments, but are able to tolerate some fixed and oscillating hyperosmotic salinity exposure. Consequently, larvae may be able to occur in certain areas of estuaries, such as oligohaline habitats that are characterized by low levels of salinity. Experimental results were used, in part, to guide larval sampling in a tidally-influenced habitat. Occurrence of larval Pacific lamprey and Lampetra spp. (western brook and river lampreys) was subsequently investigated across a gradient of salinity in Ellsworth Creek (Pacific County, Washington) by electrofishing. Larval Pacific and Lampetra spp. were detected within an approximately 300 m long tidally-influenced segment of the study area. Salinity monitoring was conducted in six tidally-influenced reaches where larvae were detected for up to 14 d following electrofishing. Maximum tidal cycle salinity exceeded 15 ppt during 52% to 80% of tidal cycles within tidally-influenced reaches where larvae were detected. These results suggest potential for larval lamprey to occur in certain portions of tidal estuaries. However, long-term residence of larvae in tidally-influenced habitats and whether larvae are able to subsequently survive, grow, transform, and out-migrate is not known and requires further study. Given the potential for tidally-influenced habitats to be occupied by larvae, assessments of larval occurrence in other areas, such as the lower Columbia River, may be warranted. Knowledge of larval lamprey distribution in estuarine environments may be valuable for habitat restoration, and mitigating potential impacts from dredging and other human disturbances. Title: Investigations of Larval Pacific Lamprey Entosphenus tridentatus Osmotic Stress Tolerance and Occurrence in a Tidally-Influenced Estuarine Stream Author: Silver, Gregory Shell Year: 2015 Pacific lamprey is a culturally valuable species to indigenous people, and has significant ecological importance in freshwater and marine ecosystems. Over the past several decades, constrictions in range and reductions in Pacific lamprey abundance have been observed in Western North America, and may be indicators of range-wide declines. In the face of declining populations, the U.S. Fish and Wildlife Service has partnered with tribal, state, federal, and local entities to implement a regional Pacific lamprey conservation agreement aimed at reducing threats to Pacific lamprey and improving their habitats and population status. Research needs identified in the conservation agreement include assessing larval Pacific lamprey occupancy and distribution, habitat requirements, and the limiting factors of larval distribution in the freshwater ecosystem. As part of the effort to address these knowledge gaps, we investigated the potential for larval lampreys to occur in tidally-influenced estuarine environments. Research of this type may be valuable for future conservation, management or recovery efforts of Pacific lamprey throughout its range. We employed a two-phased approach, consisting of laboratory and field components to address our aims. We first conducted a series of controlled laboratory experiments to evaluate osmotic stress tolerance and osmoregulatory status of larval Pacific lamprey exposed to a range of (1) fixed salinity in various dilutions of saltwater and (2) oscillating salinity treatments designed to simulate tidal activity. Tolerance was assessed by monitoring and comparing survival of larvae in various treatments through 96 h. Osmoregulatory status was assessed by quantifying and comparing total body water content, plasma osmolality, and plasma cation (i.e., sodium) concentrations among larvae surviving various treatments. In fixed salinity experiments, 100% survival was observed in 0‰, 6‰, 8‰ and 10‰ through 96 h, while 0% survival was observed through 48 h in 12‰, 30 h in 15‰, and 12 h in 25‰ and 35‰. In oscillating salinity experiments, on the other hand, a significant increase in survival (100%) was observed through 96 h in treatments that oscillated between 12‰ and 0‰ (freshwater) at about 6 h intervals versus fixed 12‰ salinity experiments. A significant increase in survival also occurred in oscillating 15‰ treatments (60%) versus fixed 15‰ through 96 h. Linear regression analysis indicated higher environmental salinity in laboratory experiments was significantly related to increases in plasma osmolality and plasma sodium (the most abundant osmotically active plasma cation) concentrations, and concurrent decreases in total body water content among larvae that survived various treatments. Tidal oscillations in salinity appeared to temper the desiccating effects of salinity, as changes in body water content and sodium ion concentration were less abrupt than fixed salinity treatments. These results suggest larvae cannot osmoregulate in hyperosmotic environments, but are able to tolerate some fixed and oscillating hyperosmotic salinity exposure. Consequently, larvae may be able to occur in certain areas of estuaries, such as oligohaline habitats that are characterized by low levels of salinity. Experimental results were used, in part, to guide larval sampling in a tidally-influenced habitat. Occurrence of larval Pacific lamprey and Lampetra spp. (western brook and river lampreys) was subsequently investigated across a gradient of salinity in Ellsworth Creek (Pacific County, Washington) by electrofishing. Larval Pacific and Lampetra spp. were detected within an approximately 300 m long tidally-influenced segment of the study area. Salinity monitoring was conducted in six tidally-influenced reaches where larvae were detected for up to 14 d following electrofishing. Maximum tidal cycle salinity exceeded 15 ppt during 52% to 80% of tidal cycles within tidally-influenced reaches where larvae were detected. These results suggest potential for larval lamprey to occur in certain portions of tidal estuaries. However, long-term residence of larvae in tidally-influenced habitats and whether larvae are able to subsequently survive, grow, transform, and out-migrate is not known and requires further study. Given the potential for tidally-influenced habitats to be occupied by larvae, assessments of larval occurrence in other areas, such as the lower Columbia River, may be warranted. Knowledge of larval lamprey distribution in estuarine environments may be valuable for habitat restoration, and mitigating potential impacts from dredging and other human disturbances. Close

• 39. [Article] Aspects of the physiology and diseases of the North American elk

  Several aspects of the physiology and diseases of the North American elk (Cervus canadensis) were investigated, toward the goal of uncovering influences responsible for declining productivity among some ...

  Citation × Citation Citation Abstract Copy Title: Aspects of the physiology and diseases of the North American elk Author: Weber, Yvonne Bernard Year: 1973 Several aspects of the physiology and diseases of the North American elk (Cervus canadensis) were investigated, toward the goal of uncovering influences responsible for declining productivity among some elk herds in Oregon. A newly developed drug, Etorphine, together with its antagonistic companion, Dip renorphine, was used to immobilize elk. Substantial differences were found in the amounts required and animal responses dependent upon age, physical condition and life history. Whole blood samples were obtained from 60 living elk for hematological studies. The parameters examined included hemoglobin levels, packed cell volume, erythrocyte and leukocyte counts, mean corpuscular hemoglobin, mean corpuscular hemoglobin concentration, mean corpuscular volume, and the percentage distribution of neutrophils, band cells, lymphocytes, monocytes, eosinophils, and basophils. Respiration rate, heart rate, and body temperature were measured for nine drugged elk. Sickling of erythrocytes was found in the blood of two female elk. Serum was separated from the blood of 72 living elk and 22 recently shot elk of mixed ages and sexes. Serum proteins were differentiated by electrophoretic analysis. Values obtained for total protein, albumin, total globulin, albumin/globulin ratio, and for the alpha1, alpha2, beta and gamma globulins, were grouped and summarized to facilitate comparisons based on age and sex, as well as between living and dead, and captive and free-living elk. Total serum protein concentrations were markedly higher in the older age groups of both captive and freeliving elk. An apparent tendency to higher albumin levels was found among males of this species. Values for serum concentrations of sodium, potassium, calcium, inorganic phosphorus, blood urea nitrogen, Chlorides, Cholesterol, glucose, direct bilirubin, total bilirubin, creatinine, and uric acid, as well as activity levels of alkaline phosphatase, lactic dehydrogenase, and serum glutamic oxalacetic transaminase were obtained. Sodium/ potassium and calCium/phosphorus ratios were calculated. Urine speciments were obtained from seven elk and analyzed for the presence of glucose. Young elk, both captive and free-living, had higher serum values for sodium, calcium, inorganic phosphorus, glucose and alkaline phosphatase than did the older age group. Mature elk, both captive and free-living, had higher serum values for calcium/phosphorus ratio, blood urea nitrogen, creatinine, uric acid and serum glutamic oxalacetic transaminase than did those under two years of age. Differences in serum Chemistry were also found between captive and free-living elk. Serological tests on sera from 67 elk tested were negative for brucellosis and bluetongue virus. Tests for leptospirosis on sera from 29 elk by the macroscopic agglutination method were all negative. Of 38 free-living elk tested for leptospirosis by the microscopic agglutination test, 16 showed positive reactions to one or more serotypes at a significant titer of 1:100 or greater. Another eight showed positive reactions at the 1:50 level. This is believed to the first report of serological reactivity to leptospirosis reported for elk. Internal organs from 39 elk were examined for the presence of adult helminths, and fecal pellets from 82 elk were examined for the presence of parasite eggs. Lethal numbers of Dictyocaulus viviparus were recovered from the respiratory organs of two yearling male elk. Two nematodes of the Trichostrongylus axei and Ostertagia circumcincta, were found that have not been previously reported from Roosevelt elk. Fascioloides magna and Oesophagostomum venulosum were also found. The common winter tick, Dermacentor albipictus and Ixodes pacificus were collected from Roosevelt elk. This latter species has not been previously reported in elk. Increased gannna globulin values and concomitant decreases in albumin were observed in tick-infested elk. Title: Aspects of the physiology and diseases of the North American elk Author: Weber, Yvonne Bernard Year: 1973 Several aspects of the physiology and diseases of the North American elk (Cervus canadensis) were investigated, toward the goal of uncovering influences responsible for declining productivity among some elk herds in Oregon. A newly developed drug, Etorphine, together with its antagonistic companion, Dip renorphine, was used to immobilize elk. Substantial differences were found in the amounts required and animal responses dependent upon age, physical condition and life history. Whole blood samples were obtained from 60 living elk for hematological studies. The parameters examined included hemoglobin levels, packed cell volume, erythrocyte and leukocyte counts, mean corpuscular hemoglobin, mean corpuscular hemoglobin concentration, mean corpuscular volume, and the percentage distribution of neutrophils, band cells, lymphocytes, monocytes, eosinophils, and basophils. Respiration rate, heart rate, and body temperature were measured for nine drugged elk. Sickling of erythrocytes was found in the blood of two female elk. Serum was separated from the blood of 72 living elk and 22 recently shot elk of mixed ages and sexes. Serum proteins were differentiated by electrophoretic analysis. Values obtained for total protein, albumin, total globulin, albumin/globulin ratio, and for the alpha1, alpha2, beta and gamma globulins, were grouped and summarized to facilitate comparisons based on age and sex, as well as between living and dead, and captive and free-living elk. Total serum protein concentrations were markedly higher in the older age groups of both captive and freeliving elk. An apparent tendency to higher albumin levels was found among males of this species. Values for serum concentrations of sodium, potassium, calcium, inorganic phosphorus, blood urea nitrogen, Chlorides, Cholesterol, glucose, direct bilirubin, total bilirubin, creatinine, and uric acid, as well as activity levels of alkaline phosphatase, lactic dehydrogenase, and serum glutamic oxalacetic transaminase were obtained. Sodium/ potassium and calCium/phosphorus ratios were calculated. Urine speciments were obtained from seven elk and analyzed for the presence of glucose. Young elk, both captive and free-living, had higher serum values for sodium, calcium, inorganic phosphorus, glucose and alkaline phosphatase than did the older age group. Mature elk, both captive and free-living, had higher serum values for calcium/phosphorus ratio, blood urea nitrogen, creatinine, uric acid and serum glutamic oxalacetic transaminase than did those under two years of age. Differences in serum Chemistry were also found between captive and free-living elk. Serological tests on sera from 67 elk tested were negative for brucellosis and bluetongue virus. Tests for leptospirosis on sera from 29 elk by the macroscopic agglutination method were all negative. Of 38 free-living elk tested for leptospirosis by the microscopic agglutination test, 16 showed positive reactions to one or more serotypes at a significant titer of 1:100 or greater. Another eight showed positive reactions at the 1:50 level. This is believed to the first report of serological reactivity to leptospirosis reported for elk. Internal organs from 39 elk were examined for the presence of adult helminths, and fecal pellets from 82 elk were examined for the presence of parasite eggs. Lethal numbers of Dictyocaulus viviparus were recovered from the respiratory organs of two yearling male elk. Two nematodes of the Trichostrongylus axei and Ostertagia circumcincta, were found that have not been previously reported from Roosevelt elk. Fascioloides magna and Oesophagostomum venulosum were also found. The common winter tick, Dermacentor albipictus and Ixodes pacificus were collected from Roosevelt elk. This latter species has not been previously reported in elk. Increased gannna globulin values and concomitant decreases in albumin were observed in tick-infested elk. Close

• 40. [Article] Understanding the Importance of Intermittently Fragmented Stream Habitat for Isolated Westslope Cutthroat Trout (<i>Oncorhynchus clarki lewisi</i>) in the Colville National Forest, Washington

  Climate change and anthropogenic effects have vastly reduced Westslope Cutthroat Trout (Oncorhynchus clarki lewisi, WCT) habitat throughout their range, including the Colville National Forest in northeastern ...

  Citation × Citation Citation Abstract Copy Title: Understanding the Importance of Intermittently Fragmented Stream Habitat for Isolated Westslope Cutthroat Trout (<i>Oncorhynchus clarki lewisi</i>) in the Colville National Forest, Washington Author: Carpenter, Forrest Michael Year: 2016 Climate change and anthropogenic effects have vastly reduced Westslope Cutthroat Trout (Oncorhynchus clarki lewisi, WCT) habitat throughout their range, including the Colville National Forest in northeastern Washington where this study was conducted. Many native salmonid populations have declined in abundance since the early 1900s due to a variety of climate- and human-driven forces. Westslope Cutthroat Trout are especially sensitive to habitat loss or degradation and to climate change. Together, climate change, habitat degradation, and non-native salmonid invasions are contributing to increasingly fragmented WCT populations. Ongoing and predicted future warming trends are expected to further fragment these populations and isolate them in headwater stream reaches, with populations in the spatial margins of their distributions facing greater risk. Native salmonid populations are often separated or isolated by natural or artificial upstream migration barriers (i.e., waterfalls, culverts, etc.). Prior to continuing conservation and management actions targeting WCT, it is imperative to understand habitat requirements of this keystone species in fragmented areas. Field survey data were collected in the summer of 2015 on channel geomorphic characteristics and WCT presence/absence in 26 streams located in the Colville National Forest. A clear spatial separation was observed between Eastern Brook Trout (Salvenius fontinalis, EBT) and WCT above four culvert road crossings and the habitat in both of these areas was compared statistically to identify explicit differences. This dataset was also analyzed using logistic regression modeling to determine the best habitat predictors of the presence of isolated WCT populations existing upstream of these crossing. In general, stream habitat in the Middle and South Forks of Mill Creek had low large substrate, high fine sediments, and exhibited pool-riffle channel morphology. Pool habitat supporting isolated WCT was significantly smaller, in terms of volume and surface area, than pool habitat supporting sympatric populations of WCT and EBT, largely due to the headwater nature of channel units supporting isolated WCT populations. Additionally, due to the extreme drought conditions during 2015, stream flow was substantially diminished in the study area causing these reaches to be highly fragmented and largely disconnected from the rest of the stream channel. Fine sediments were generally higher in headwater reaches supporting isolated WCT, including in pools and riffles, which was unexpected, mainly because they exist above sediment delivery points in the longitudinal extent of the system. Logistic regression analysis indicated that the presence of isolated WCT populations was primarily positively associated with an increase in large wood and boulders, and negatively associated with increasing gravel, bedrock, habitat unit length, depth, and width (Significant x2, R2=0.174, misclassification rate = 14.9%, α=0.05). The final model correctly predicted 37.5% of isolated WCT presence observations and 96.5% of the WCT/EBT presence observations significantly better than by chance alone (k=0.81). This model, in fact, may be useful in identifying limited habitat due to the fragmented nature of the channel units supporting IWCT. Large wood and boulders were positively correlated to WCT presence, likely because both are important in the formation of pools and cascades. Channel unit length, width, depth, active channel width as well as gravel and bedrock substrates, were all negatively associated with WCT presence. This suggests that isolated WCT are primarily associated with small headwater cascades with complex shelter, which may provide greater thermal and predation refuge compared to shallow glide or large pool habitats. Future model analysis should include additional habitat variables such as water temperature, stream gradient, and species interactions to strengthen the prediction of Westslope Cutthroat Trout presence. Overall, I concluded that differences in stream habitat above and below blocking culverts are not driving Westslope Cutthroat Trout distributions in the study area due to confounding factors such as the presence of problematic barriers and small sample size. I also conclude that future conservation and management decisions specific to WCT should prioritize complex cascade habitat in headwater stream reaches because of the type and quantity of habitat they may provide, especially during severe drought or low flow conditions. Title: Understanding the Importance of Intermittently Fragmented Stream Habitat for Isolated Westslope Cutthroat Trout (<i>Oncorhynchus clarki lewisi</i>) in the Colville National Forest, Washington Author: Carpenter, Forrest Michael Year: 2016 Climate change and anthropogenic effects have vastly reduced Westslope Cutthroat Trout (Oncorhynchus clarki lewisi, WCT) habitat throughout their range, including the Colville National Forest in northeastern Washington where this study was conducted. Many native salmonid populations have declined in abundance since the early 1900s due to a variety of climate- and human-driven forces. Westslope Cutthroat Trout are especially sensitive to habitat loss or degradation and to climate change. Together, climate change, habitat degradation, and non-native salmonid invasions are contributing to increasingly fragmented WCT populations. Ongoing and predicted future warming trends are expected to further fragment these populations and isolate them in headwater stream reaches, with populations in the spatial margins of their distributions facing greater risk. Native salmonid populations are often separated or isolated by natural or artificial upstream migration barriers (i.e., waterfalls, culverts, etc.). Prior to continuing conservation and management actions targeting WCT, it is imperative to understand habitat requirements of this keystone species in fragmented areas. Field survey data were collected in the summer of 2015 on channel geomorphic characteristics and WCT presence/absence in 26 streams located in the Colville National Forest. A clear spatial separation was observed between Eastern Brook Trout (Salvenius fontinalis, EBT) and WCT above four culvert road crossings and the habitat in both of these areas was compared statistically to identify explicit differences. This dataset was also analyzed using logistic regression modeling to determine the best habitat predictors of the presence of isolated WCT populations existing upstream of these crossing. In general, stream habitat in the Middle and South Forks of Mill Creek had low large substrate, high fine sediments, and exhibited pool-riffle channel morphology. Pool habitat supporting isolated WCT was significantly smaller, in terms of volume and surface area, than pool habitat supporting sympatric populations of WCT and EBT, largely due to the headwater nature of channel units supporting isolated WCT populations. Additionally, due to the extreme drought conditions during 2015, stream flow was substantially diminished in the study area causing these reaches to be highly fragmented and largely disconnected from the rest of the stream channel. Fine sediments were generally higher in headwater reaches supporting isolated WCT, including in pools and riffles, which was unexpected, mainly because they exist above sediment delivery points in the longitudinal extent of the system. Logistic regression analysis indicated that the presence of isolated WCT populations was primarily positively associated with an increase in large wood and boulders, and negatively associated with increasing gravel, bedrock, habitat unit length, depth, and width (Significant x2, R2=0.174, misclassification rate = 14.9%, α=0.05). The final model correctly predicted 37.5% of isolated WCT presence observations and 96.5% of the WCT/EBT presence observations significantly better than by chance alone (k=0.81). This model, in fact, may be useful in identifying limited habitat due to the fragmented nature of the channel units supporting IWCT. Large wood and boulders were positively correlated to WCT presence, likely because both are important in the formation of pools and cascades. Channel unit length, width, depth, active channel width as well as gravel and bedrock substrates, were all negatively associated with WCT presence. This suggests that isolated WCT are primarily associated with small headwater cascades with complex shelter, which may provide greater thermal and predation refuge compared to shallow glide or large pool habitats. Future model analysis should include additional habitat variables such as water temperature, stream gradient, and species interactions to strengthen the prediction of Westslope Cutthroat Trout presence. Overall, I concluded that differences in stream habitat above and below blocking culverts are not driving Westslope Cutthroat Trout distributions in the study area due to confounding factors such as the presence of problematic barriers and small sample size. I also conclude that future conservation and management decisions specific to WCT should prioritize complex cascade habitat in headwater stream reaches because of the type and quantity of habitat they may provide, especially during severe drought or low flow conditions. Close

• 41. [Article] Investigating the Link Between Surface Water and Groundwater in the Tule Lake Subbasin, Oregon and California

  Water allocation in the upper Klamath Basin of Oregon and California has been challenging. Irrigators have increasingly turned to groundwater to make up for surface water shortages because of shifts in ...

  Citation × Citation Citation Abstract Copy Title: Investigating the Link Between Surface Water and Groundwater in the Tule Lake Subbasin, Oregon and California Author: Pischel, Esther Maria Year: 2014 Water allocation in the upper Klamath Basin of Oregon and California has been challenging. Irrigators have increasingly turned to groundwater to make up for surface water shortages because of shifts in allocation toward in-stream flows for Endangered Species Act listed fishes. The largest increase in groundwater pumping has been in and around the Bureau of Reclamation's Klamath Irrigation Project, which includes the Tule Lake subbasin in the southern part of the upper Klamath Basin. Previous groundwater flow model simulations indicate that water level declines from pumping may result in decreased flow to agricultural drains in the Tule Lake subbasin. Agricultural drains on the Klamath Project are an important source of water for downstream irrigators and for the Tule Lake and Lower Klamath Lake National Wildlife Refuges. To better assess the impact of increased pumping on drain flow and on the water balance of the groundwater system, flow data from agricultural drains were evaluated to investigate the changes that have taken place in groundwater discharge to drains since pumping volumes increased. Additionally, a fine-grid groundwater model of the Tule Lake subbasin was developed based on the existing regional flow model. The fine-grid model has sufficient vertical and horizontal resolution to simulate vertical head gradients, takes advantage of time-series data from 38 observation wells for model calibration, and allows agricultural drains to be more explicitly represented. Results of the drain flow analysis show that the groundwater discharge to agricultural drains has decreased by approximately 4000 hectare-meters from the 1997-2000 average discharge. Most of this decrease takes place in the northern and southeastern portions of the subbasin. Results of the groundwater model show that the initial source of water to wells is groundwater storage. By 2006, approximately 56% of the water from wells is sourced from agricultural drains. Title: Investigating the Link Between Surface Water and Groundwater in the Tule Lake Subbasin, Oregon and California Author: Pischel, Esther Maria Year: 2014 Water allocation in the upper Klamath Basin of Oregon and California has been challenging. Irrigators have increasingly turned to groundwater to make up for surface water shortages because of shifts in allocation toward in-stream flows for Endangered Species Act listed fishes. The largest increase in groundwater pumping has been in and around the Bureau of Reclamation's Klamath Irrigation Project, which includes the Tule Lake subbasin in the southern part of the upper Klamath Basin. Previous groundwater flow model simulations indicate that water level declines from pumping may result in decreased flow to agricultural drains in the Tule Lake subbasin. Agricultural drains on the Klamath Project are an important source of water for downstream irrigators and for the Tule Lake and Lower Klamath Lake National Wildlife Refuges. To better assess the impact of increased pumping on drain flow and on the water balance of the groundwater system, flow data from agricultural drains were evaluated to investigate the changes that have taken place in groundwater discharge to drains since pumping volumes increased. Additionally, a fine-grid groundwater model of the Tule Lake subbasin was developed based on the existing regional flow model. The fine-grid model has sufficient vertical and horizontal resolution to simulate vertical head gradients, takes advantage of time-series data from 38 observation wells for model calibration, and allows agricultural drains to be more explicitly represented. Results of the drain flow analysis show that the groundwater discharge to agricultural drains has decreased by approximately 4000 hectare-meters from the 1997-2000 average discharge. Most of this decrease takes place in the northern and southeastern portions of the subbasin. Results of the groundwater model show that the initial source of water to wells is groundwater storage. By 2006, approximately 56% of the water from wells is sourced from agricultural drains. Close

• 42. [Article] Report on Wintering Western Snowy Plovers at Coos Bay North Spit and Impacts to Plovers from The North Jetty Repair Project, Winter 2009

  The Western Snowy Plover (Charadrius alexandrinus nivosus) breeds along the coast of the Pacific Ocean in California, Oregon, and Washington and at alkaline lakes in the interior of the western United ...

  Citation × Citation Citation Abstract Copy Title: Report on Wintering Western Snowy Plovers at Coos Bay North Spit and Impacts to Plovers from The North Jetty Repair Project, Winter 2009 Author: Lauten, David J., Castelein, Kathleen J., Gaines, Eleanor P. Year: 2009 The Western Snowy Plover (Charadrius alexandrinus nivosus) breeds along the coast of the Pacific Ocean in California, Oregon, and Washington and at alkaline lakes in the interior of the western United States (Page et al. 1991). Loss of habitat, predation pressures, and disturbance have caused the decline of the coastal population of Snowy Plovers and led to the listing of the Pacific Coast Population of Western Snowy Plovers as Threatened on March 5, 1993 (U.S. Fish and Wildlife Service 1993). Oregon Western Snowy Plovers are known to winter along the coast of Oregon as well as migrate to other wintering locations, mainly in California (Lauten et al. 2001, ORNHIC unpublished data). Previous winter surveys along the Oregon coast (Oregon Department of Fish and Wildlife, unpublished data, ORNHIC unpublished data) have documented the locations of wintering Snowy Plovers. Coos Bay North Spit (CBNS) is one location where plovers are known to winter. During the winter of 2008-2009, Army Corp of Engineers (ACOE) contracted Kerr Contractors, Inc. to complete repairs on the North Jetty of the Coos River. ACOE consulted with U.S. Fish and Wildlife Service (USFWS) regarding impacts to sensitive species including Western Snowy Plover. ACOE contracted Oregon Natural Heritage Information Center (ORNHIC) to complete two Snowy Plover surveys prior to jetty repair work, two plover surveys per week during repair work, and two plover surveys post repair work to document any potential impacts to wintering plovers. In winter, plovers tend to spend much of their time roosting along the high tide wrack line, but also spend time foraging, often on the wet sand near the surf (ORHIC, unpublished data). At CBNS, winter Snowy Plover survey data has shown that plovers will roost and feed on the beach north of the North Jetty, but also spend time roosting on the South Spoil and Habitat Restoration Areas (HRAs) east of the foredune. Large 20-ton dump trucks and other large equipment were used to haul material to the North Jetty. Vehicles used the foredune road that bisects the HRAs. Our objectives were to survey and monitor Snowy Plovers on the beach, HRAs, and South Spoil, to document the number of plovers using the area and any impacts or disturbance to the plovers during the North Jetty repair project. Title: Report on Wintering Western Snowy Plovers at Coos Bay North Spit and Impacts to Plovers from The North Jetty Repair Project, Winter 2009 Author: Lauten, David J., Castelein, Kathleen J., Gaines, Eleanor P. Year: 2009 The Western Snowy Plover (Charadrius alexandrinus nivosus) breeds along the coast of the Pacific Ocean in California, Oregon, and Washington and at alkaline lakes in the interior of the western United States (Page et al. 1991). Loss of habitat, predation pressures, and disturbance have caused the decline of the coastal population of Snowy Plovers and led to the listing of the Pacific Coast Population of Western Snowy Plovers as Threatened on March 5, 1993 (U.S. Fish and Wildlife Service 1993). Oregon Western Snowy Plovers are known to winter along the coast of Oregon as well as migrate to other wintering locations, mainly in California (Lauten et al. 2001, ORNHIC unpublished data). Previous winter surveys along the Oregon coast (Oregon Department of Fish and Wildlife, unpublished data, ORNHIC unpublished data) have documented the locations of wintering Snowy Plovers. Coos Bay North Spit (CBNS) is one location where plovers are known to winter. During the winter of 2008-2009, Army Corp of Engineers (ACOE) contracted Kerr Contractors, Inc. to complete repairs on the North Jetty of the Coos River. ACOE consulted with U.S. Fish and Wildlife Service (USFWS) regarding impacts to sensitive species including Western Snowy Plover. ACOE contracted Oregon Natural Heritage Information Center (ORNHIC) to complete two Snowy Plover surveys prior to jetty repair work, two plover surveys per week during repair work, and two plover surveys post repair work to document any potential impacts to wintering plovers. In winter, plovers tend to spend much of their time roosting along the high tide wrack line, but also spend time foraging, often on the wet sand near the surf (ORHIC, unpublished data). At CBNS, winter Snowy Plover survey data has shown that plovers will roost and feed on the beach north of the North Jetty, but also spend time roosting on the South Spoil and Habitat Restoration Areas (HRAs) east of the foredune. Large 20-ton dump trucks and other large equipment were used to haul material to the North Jetty. Vehicles used the foredune road that bisects the HRAs. Our objectives were to survey and monitor Snowy Plovers on the beach, HRAs, and South Spoil, to document the number of plovers using the area and any impacts or disturbance to the plovers during the North Jetty repair project. Close

• 43. [Article] Resolution and Reconstitution of the Photosystem I Reaction Center: Structure and Function of the Terminal Electron Acceptor FA/FB Polypeptide

  The Photosystem I core protein containing P700, A₀, A₁, and Fx has been isolated from Synechococcus sp. PCC 6301 and spinach Photosystem I complexes with 6.8 M urea followed by sucrose density ultracentrifugtion. ...

  Citation × Citation Citation Abstract Copy Title: Resolution and Reconstitution of the Photosystem I Reaction Center: Structure and Function of the Terminal Electron Acceptor FA/FB Polypeptide Author: Mehari, Tetemke Year: 1990 The Photosystem I core protein containing P700, A₀, A₁, and Fx has been isolated from Synechococcus sp. PCC 6301 and spinach Photosystem I complexes with 6.8 M urea followed by sucrose density ultracentrifugtion. The Photosystem I core protein has retained > 90% of Fx and 100% of P700 (determined by optical spectroscopy) but is totally devoid of iron-sulfur centers Fᴀ and Fв (determined by optical and ESR spectroscopy). SDS-PAGE indicates the retention of the 82-and 83-kDa reaction center polypeptides. The loss of Fᴀ and Fв is further reflected in the decline of acid labile sulfide from 11.8 ± 0.4 S²-/P700 in the Photosystem I complex to 4.6 ± 0.3 S²-/P700 in the Photosystem I core.protein. This preparation represents the first isolation of an intact reaction center core incorporating the redox centers P700 through Fx but totally lacking Fᴀ and Fʙ. Complete restoration of electron flow from P700 to Fᴀ/Fв was achieved by incubating a P700 and Fx-containing Photosystem I core protein with a freshly isolated 8.9-kDa, Fᴀ/Fв polypeptide. When illuminated during freezing, both Fᴀ and Fв become quantitatively reduced, and the ESR spectrum is nearly indistinguishable from Fᴀ and Fв in the control Photosystem I complex. In the reconstituted Photosystem I complex Fx is photochemically reduced only in the presence of Fᴀ- and Fв- and the broad high field resonance of Fx in the core protein appears upon reconstitution to be indistinguishable from Fx in the control Photosystem I complex. Optical flash photolysis after extensive washing confirms the complete restoration of the P700+ [Fᴀ/Fв]- backreaction, indicating quantitative rebinding of the 8.9-kOa polypeptide. This procedure.represents the first reconstitution of the Photosystem I complex from a purified Photosystem I core protein and a freshly isolated 8.9 kDa Fᴀ/Fв holoprotein, and makes possible independent manipulation of the two subunits that carry the entire electron acceptor system of Photosystem I. The Fᴀ/Fв iron-sulfur clusters in the 8.9 kDa polypeptide are easily degraded to the level of zero-valence sulfur during isolation from the Photosystem I complex. The level of degradation is minimized by working under anaerobic conditions and low temperature. It has been found that incubation of the purified Photosystem I core protein and the low molecular mass polypeptides (which includes the 8.9-kDa Fᴀ/Fв apoprotein) with a solution of FeCI₃, Na₂S and B-mercaptoethanol restores the light induced charge separation between P700 and Fᴀ/Fв. The optical and spectroscopic properties are indistinguishable from the control Photosystem one I complex. When a rebuilt spinach or Synechococcus sp. PeC 6301 Fᴀ/Fв polypeptide is rebound to a Photosystem I core protein from the same species, the reconstituted complexes show light-induced ESR spectra of Fᴀ/Fв with g-values identical to their respective controls. However, when the rebuilt spinach Fᴀ/Fв polypeptide is rebound to a Synechococcus sp. PCC 6301 Photosystem I core protein, the hybrid spinach Synechococcus sp. PCC 6301 Photo system complex shows a light-induced ESR spectrum of Fᴀ/Fв with g- values that differ slightly, but characteristically, from those of both spinach and Synechococcus sp. PCC 6301 control complexes. The hybrid spinach-Synechococcus sp. PCC 6301 Photosystem I complex was completely functional in light-induced charge separation between P700 and Fᴀ/Fв and showed a normal 30-ms room temperature charge recombination between P700+ and [Fᴀ/Fв]-. Accordingly, rebuilding of the Fᴀ and Fв iron-sulfur clusters is now possible and reconstitution of the Fᴀ/Fв holoprotein after chemical modification of the Fᴀ/Fв apoprotein or genetic modification of the psaC gene should reveal new findings about Photosystem I structure and function. Title: Resolution and Reconstitution of the Photosystem I Reaction Center: Structure and Function of the Terminal Electron Acceptor FA/FB Polypeptide Author: Mehari, Tetemke Year: 1990 The Photosystem I core protein containing P700, A₀, A₁, and Fx has been isolated from Synechococcus sp. PCC 6301 and spinach Photosystem I complexes with 6.8 M urea followed by sucrose density ultracentrifugtion. The Photosystem I core protein has retained > 90% of Fx and 100% of P700 (determined by optical spectroscopy) but is totally devoid of iron-sulfur centers Fᴀ and Fв (determined by optical and ESR spectroscopy). SDS-PAGE indicates the retention of the 82-and 83-kDa reaction center polypeptides. The loss of Fᴀ and Fв is further reflected in the decline of acid labile sulfide from 11.8 ± 0.4 S²-/P700 in the Photosystem I complex to 4.6 ± 0.3 S²-/P700 in the Photosystem I core.protein. This preparation represents the first isolation of an intact reaction center core incorporating the redox centers P700 through Fx but totally lacking Fᴀ and Fʙ. Complete restoration of electron flow from P700 to Fᴀ/Fв was achieved by incubating a P700 and Fx-containing Photosystem I core protein with a freshly isolated 8.9-kDa, Fᴀ/Fв polypeptide. When illuminated during freezing, both Fᴀ and Fв become quantitatively reduced, and the ESR spectrum is nearly indistinguishable from Fᴀ and Fв in the control Photosystem I complex. In the reconstituted Photosystem I complex Fx is photochemically reduced only in the presence of Fᴀ- and Fв- and the broad high field resonance of Fx in the core protein appears upon reconstitution to be indistinguishable from Fx in the control Photosystem I complex. Optical flash photolysis after extensive washing confirms the complete restoration of the P700+ [Fᴀ/Fв]- backreaction, indicating quantitative rebinding of the 8.9-kOa polypeptide. This procedure.represents the first reconstitution of the Photosystem I complex from a purified Photosystem I core protein and a freshly isolated 8.9 kDa Fᴀ/Fв holoprotein, and makes possible independent manipulation of the two subunits that carry the entire electron acceptor system of Photosystem I. The Fᴀ/Fв iron-sulfur clusters in the 8.9 kDa polypeptide are easily degraded to the level of zero-valence sulfur during isolation from the Photosystem I complex. The level of degradation is minimized by working under anaerobic conditions and low temperature. It has been found that incubation of the purified Photosystem I core protein and the low molecular mass polypeptides (which includes the 8.9-kDa Fᴀ/Fв apoprotein) with a solution of FeCI₃, Na₂S and B-mercaptoethanol restores the light induced charge separation between P700 and Fᴀ/Fв. The optical and spectroscopic properties are indistinguishable from the control Photosystem one I complex. When a rebuilt spinach or Synechococcus sp. PeC 6301 Fᴀ/Fв polypeptide is rebound to a Photosystem I core protein from the same species, the reconstituted complexes show light-induced ESR spectra of Fᴀ/Fв with g-values identical to their respective controls. However, when the rebuilt spinach Fᴀ/Fв polypeptide is rebound to a Synechococcus sp. PCC 6301 Photosystem I core protein, the hybrid spinach Synechococcus sp. PCC 6301 Photo system complex shows a light-induced ESR spectrum of Fᴀ/Fв with g- values that differ slightly, but characteristically, from those of both spinach and Synechococcus sp. PCC 6301 control complexes. The hybrid spinach-Synechococcus sp. PCC 6301 Photosystem I complex was completely functional in light-induced charge separation between P700 and Fᴀ/Fв and showed a normal 30-ms room temperature charge recombination between P700+ and [Fᴀ/Fв]-. Accordingly, rebuilding of the Fᴀ and Fв iron-sulfur clusters is now possible and reconstitution of the Fᴀ/Fв holoprotein after chemical modification of the Fᴀ/Fв apoprotein or genetic modification of the psaC gene should reveal new findings about Photosystem I structure and function. Close

• 44. [Article] Final Report: Evaluation of the Morphoedaphic Index and Sediment Diatoms for Inference of Pre-European Settlement Total Phosphorus Concentration in EPA Region 10 Lakes

  Water quality in many Northwest lakes has declined over the past century due, in part, to increased anthropogenic nutrient loading (Edmonson and Lehman, 1981). Under the Clean Water Act, resource managers ...

  Citation × Citation Citation Abstract Copy Title: Final Report: Evaluation of the Morphoedaphic Index and Sediment Diatoms for Inference of Pre-European Settlement Total Phosphorus Concentration in EPA Region 10 Lakes Author: Miller, Rich, Hook, Aaron, Petersen, Richard, Sytsma, Mark D. Year: 2005 Water quality in many Northwest lakes has declined over the past century due, in part, to increased anthropogenic nutrient loading (Edmonson and Lehman, 1981). Under the Clean Water Act, resource managers such as the Washington Department of Ecology, Oregon Department of Environmental Quality, and tribes are responsible for restoring and protecting the integrity of these waters. Targets for restoration or criteria for impairment are not well defined, however, and may naturally vary by geology, hydrology, morphometry, and climate. One way to determine whether lakes are impaired and to identify restoration targets is to assess lake reference conditions (EPA 2000). Reference conditions are the water quality conditions that would exist in the absence of anthropogenic perturbation. Reference conditions are not nutrient criteria but can be useful in establishing realistic criteria that reflect natural regional variations in water quality. The EPA suggests three general approaches for assessing reference conditions (EPA 2000): Observation of reference lake or entire lake population distributions Paleolimnological reconstruction of past conditions. Estimation of past conditions from mass balance nutrient loading models, morphoedaphic index models, or other mathematical models. The lake population distribution approach involves observing data from either a set of lakes that are relatively unimpacted or from a random selection of all lakes in a region. The lower percentile of each population distribution is assumed to represent reference conditions. The lower 75th percentile of the relatively unimpacted population distribution has been used as a cutoff for reference conditions while the 25th percentile has been used for the lake population distribution as a whole. The Washington Department of Ecology has used this approach to develop phosphorus criteria (Moore and Hicks 2004). This approach assumes that the percentiles in a distribution represent reference conditions. Paleolimnological models are based on the observation that sediments continually incorporate information from the overlying water column and that sediment cores provide a history of past conditions. Sedimented diatom-based water quality reconstructions are based on two main observations (Hall and Smol 1992): (1) individual diatom species have restricted nutrient requirements and are sensitive indicators of lake trophic status, and (2) the cell walls of diatoms are abundant and well preserved in most lake sediments and can usually be identified to a specific or subspecific level. Weighted-averaging and calibration statistical models have been used to relate sediment surface diatom assemblages to contemporary water quality parameters. These speciesenvironment relationships, known as transfer functions, can then be used to infer past water quality conditions from diatom remains preserved deep in sediments. This approach has been successfully applied in several geographic regions including the northeastern United States (Dixit et al. 1999), Minnesota (Ramstack et al. 2003), and British Columbia (Reavie et al. 1995). The morphoedaphic index (MEI) was originally developed to predict fisheries yield in lakes based on lake morphometry and alkalinity or conductivity (Ryder 1965). Vighi and Chiaudani (1985) suggested the utility of the index for inferring natural background phosphorus levels in lakes. Their major assumption was that human activities have not altered lake morphometry and ionic strength to the degree that the same activities have increased nutrient loading. While the model is simple, it has been successfully used in to infer background phosphorus concentration in Midwest lakes (Ramstack et al. 2003). We used the MEI and the sedimented diatom total phosphorus inference models to assess lake reference conditions for Puget Lowlands and Northern Willamette Valley Ecoregion Lakes. Title: Final Report: Evaluation of the Morphoedaphic Index and Sediment Diatoms for Inference of Pre-European Settlement Total Phosphorus Concentration in EPA Region 10 Lakes Author: Miller, Rich, Hook, Aaron, Petersen, Richard, Sytsma, Mark D. Year: 2005 Water quality in many Northwest lakes has declined over the past century due, in part, to increased anthropogenic nutrient loading (Edmonson and Lehman, 1981). Under the Clean Water Act, resource managers such as the Washington Department of Ecology, Oregon Department of Environmental Quality, and tribes are responsible for restoring and protecting the integrity of these waters. Targets for restoration or criteria for impairment are not well defined, however, and may naturally vary by geology, hydrology, morphometry, and climate. One way to determine whether lakes are impaired and to identify restoration targets is to assess lake reference conditions (EPA 2000). Reference conditions are the water quality conditions that would exist in the absence of anthropogenic perturbation. Reference conditions are not nutrient criteria but can be useful in establishing realistic criteria that reflect natural regional variations in water quality. The EPA suggests three general approaches for assessing reference conditions (EPA 2000): Observation of reference lake or entire lake population distributions Paleolimnological reconstruction of past conditions. Estimation of past conditions from mass balance nutrient loading models, morphoedaphic index models, or other mathematical models. The lake population distribution approach involves observing data from either a set of lakes that are relatively unimpacted or from a random selection of all lakes in a region. The lower percentile of each population distribution is assumed to represent reference conditions. The lower 75th percentile of the relatively unimpacted population distribution has been used as a cutoff for reference conditions while the 25th percentile has been used for the lake population distribution as a whole. The Washington Department of Ecology has used this approach to develop phosphorus criteria (Moore and Hicks 2004). This approach assumes that the percentiles in a distribution represent reference conditions. Paleolimnological models are based on the observation that sediments continually incorporate information from the overlying water column and that sediment cores provide a history of past conditions. Sedimented diatom-based water quality reconstructions are based on two main observations (Hall and Smol 1992): (1) individual diatom species have restricted nutrient requirements and are sensitive indicators of lake trophic status, and (2) the cell walls of diatoms are abundant and well preserved in most lake sediments and can usually be identified to a specific or subspecific level. Weighted-averaging and calibration statistical models have been used to relate sediment surface diatom assemblages to contemporary water quality parameters. These speciesenvironment relationships, known as transfer functions, can then be used to infer past water quality conditions from diatom remains preserved deep in sediments. This approach has been successfully applied in several geographic regions including the northeastern United States (Dixit et al. 1999), Minnesota (Ramstack et al. 2003), and British Columbia (Reavie et al. 1995). The morphoedaphic index (MEI) was originally developed to predict fisheries yield in lakes based on lake morphometry and alkalinity or conductivity (Ryder 1965). Vighi and Chiaudani (1985) suggested the utility of the index for inferring natural background phosphorus levels in lakes. Their major assumption was that human activities have not altered lake morphometry and ionic strength to the degree that the same activities have increased nutrient loading. While the model is simple, it has been successfully used in to infer background phosphorus concentration in Midwest lakes (Ramstack et al. 2003). We used the MEI and the sedimented diatom total phosphorus inference models to assess lake reference conditions for Puget Lowlands and Northern Willamette Valley Ecoregion Lakes. Close