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

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

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

• 2. [Article] Evaluating the Effects of Road Crossing Structures on Stream-Associated Amphibians in the Wilson River Watershed, Tillamook State Forest, Oregon

  As replacement and removal of undersized culverts gains momentum as an effective technique for restoring natural stream flows and removing fish passage barriers, it is important to evaluate the benefits ...

  Citation × Citation Citation Abstract Copy Title: Evaluating the Effects of Road Crossing Structures on Stream-Associated Amphibians in the Wilson River Watershed, Tillamook State Forest, Oregon Author: Twitchell, Sara Erin Year: 2013 As replacement and removal of undersized culverts gains momentum as an effective technique for restoring natural stream flows and removing fish passage barriers, it is important to evaluate the benefits of these efforts on the in-stream and adjacent riparian habitat for other species of potential concern. This study compares stream-associated amphibian (SAA) occurrence in streams adjacent to different road crossing structures on unpaved forest roads in the Wilson River watershed located within the Tillamook State Forest, Oregon. Surveys were conducted at road crossing structures for three taxa of SAA; Pacific giant salamander (Dicamptodon tenebrosus), coastal tailed frog (Ascaphus truei), and Columbia torrent salamander (Rhyacotriton kezeri). Statistical models were created to analyze the effect of habitat variables on SAA occupancy, and determine whether those variables changed relative to road crossing structures. Results showed that coastal tailed frog occupancy was positively associated with dissolved oxygen and crayfish presence, negatively associated with longitude, and had a slight quadratic relationship to channel confinement. Because all sites were highly saturated with oxygen, percent dissolved oxygen was likely a surrogate for one or more other covariates, such as in-stream habitat or substrate size. Detection rates of Pacific giant salamander were too high and detection rates of Columbia torrent salamander were too low to provide reliable models, but they did provide some insight into the factors affecting occupancy in the study area, including information about their interactions with road crossing structures. Occupancy rates of Pacific giant salamanders in the study area appear to be unaffected by road crossings, fish passable or otherwise. Conversely, torrent salamanders seemed to be mostly absent from the study sites altogether, but based on the one stream where they were detected, they are not excluded from occupying fish barrier culvert sites. Top weighted habitat covariates, including dissolved oxygen, channel confinement, crayfish and fish presence, and flow constriction are all indicators of disturbance that can be linked to road crossings. Although the size and structure of road crossings did not prove to significantly influence SAA occupancy, indicators of stream disturbance that can be related to road crossings were included in the best models for predicting occupancy, demonstrating the importance of reducing disturbance related to road crossings on streams. Title: Evaluating the Effects of Road Crossing Structures on Stream-Associated Amphibians in the Wilson River Watershed, Tillamook State Forest, Oregon Author: Twitchell, Sara Erin Year: 2013 As replacement and removal of undersized culverts gains momentum as an effective technique for restoring natural stream flows and removing fish passage barriers, it is important to evaluate the benefits of these efforts on the in-stream and adjacent riparian habitat for other species of potential concern. This study compares stream-associated amphibian (SAA) occurrence in streams adjacent to different road crossing structures on unpaved forest roads in the Wilson River watershed located within the Tillamook State Forest, Oregon. Surveys were conducted at road crossing structures for three taxa of SAA; Pacific giant salamander (Dicamptodon tenebrosus), coastal tailed frog (Ascaphus truei), and Columbia torrent salamander (Rhyacotriton kezeri). Statistical models were created to analyze the effect of habitat variables on SAA occupancy, and determine whether those variables changed relative to road crossing structures. Results showed that coastal tailed frog occupancy was positively associated with dissolved oxygen and crayfish presence, negatively associated with longitude, and had a slight quadratic relationship to channel confinement. Because all sites were highly saturated with oxygen, percent dissolved oxygen was likely a surrogate for one or more other covariates, such as in-stream habitat or substrate size. Detection rates of Pacific giant salamander were too high and detection rates of Columbia torrent salamander were too low to provide reliable models, but they did provide some insight into the factors affecting occupancy in the study area, including information about their interactions with road crossing structures. Occupancy rates of Pacific giant salamanders in the study area appear to be unaffected by road crossings, fish passable or otherwise. Conversely, torrent salamanders seemed to be mostly absent from the study sites altogether, but based on the one stream where they were detected, they are not excluded from occupying fish barrier culvert sites. Top weighted habitat covariates, including dissolved oxygen, channel confinement, crayfish and fish presence, and flow constriction are all indicators of disturbance that can be linked to road crossings. Although the size and structure of road crossings did not prove to significantly influence SAA occupancy, indicators of stream disturbance that can be related to road crossings were included in the best models for predicting occupancy, demonstrating the importance of reducing disturbance related to road crossings on streams. Close

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

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

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

• 4. [Article] An Experimental Investigation of Nest Reuse and Nest Site Selection in an Open-Cup Nesting Passerine

  Eastern Kingbirds (Tyrannus tyrannus) breed from coast to coast in North America and build open-cup nests in trees. They have been extensively studied across most of their range and have only on occasion ...

  Citation × Citation Citation Abstract Copy Title: An Experimental Investigation of Nest Reuse and Nest Site Selection in an Open-Cup Nesting Passerine Author: Cancellieri, Sarah A. Year: 2013 Eastern Kingbirds (Tyrannus tyrannus) breed from coast to coast in North America and build open-cup nests in trees. They have been extensively studied across most of their range and have only on occasion been documented to reuse a nest from a previous season. However, at Malheur National Wildlife Refuge (MNWR), located in southeastern Oregon, ~10 % of female Eastern Kingbirds reuse old nests of mainly American Robins (Turdus migratorius). In an attempt to address why nest reuse is so common at MNWR, I used artificial nests to evaluate two hypotheses as to why nest reuse is common in this breeding population. The first hypothesis states that Eastern Kingbirds reuse nests to save time and/or energy (TES) and the second one states nest reuse occurs because there is a shortage of suitable nest sites (NSS). I was able to reject the TES hypothesis because artificial nests provided no apparent reproductive benefits to Eastern Kingbirds, except that if a nest had failed it took less time to lay a replacement clutch after an initial failure if an artificial nest was used instead of building a new nest. A more reasonable explanation is that Eastern Kingbirds face a limited availability of suitable nest sites. With this in mind, I took vegetation measurements to address the hypothesis that Eastern Kingbirds make adaptive choices when selecting a nest site, in which case they would choose sites that increase their probability of breeding successfully. Successful nests, both natural and artificial, were placed higher in a tree and on a steeper angled nest branch than their failed counterparts. Those findings suggest that Eastern Kingbirds make adaptive choices when selecting a nest site. Title: An Experimental Investigation of Nest Reuse and Nest Site Selection in an Open-Cup Nesting Passerine Author: Cancellieri, Sarah A. Year: 2013 Eastern Kingbirds (Tyrannus tyrannus) breed from coast to coast in North America and build open-cup nests in trees. They have been extensively studied across most of their range and have only on occasion been documented to reuse a nest from a previous season. However, at Malheur National Wildlife Refuge (MNWR), located in southeastern Oregon, ~10 % of female Eastern Kingbirds reuse old nests of mainly American Robins (Turdus migratorius). In an attempt to address why nest reuse is so common at MNWR, I used artificial nests to evaluate two hypotheses as to why nest reuse is common in this breeding population. The first hypothesis states that Eastern Kingbirds reuse nests to save time and/or energy (TES) and the second one states nest reuse occurs because there is a shortage of suitable nest sites (NSS). I was able to reject the TES hypothesis because artificial nests provided no apparent reproductive benefits to Eastern Kingbirds, except that if a nest had failed it took less time to lay a replacement clutch after an initial failure if an artificial nest was used instead of building a new nest. A more reasonable explanation is that Eastern Kingbirds face a limited availability of suitable nest sites. With this in mind, I took vegetation measurements to address the hypothesis that Eastern Kingbirds make adaptive choices when selecting a nest site, in which case they would choose sites that increase their probability of breeding successfully. Successful nests, both natural and artificial, were placed higher in a tree and on a steeper angled nest branch than their failed counterparts. Those findings suggest that Eastern Kingbirds make adaptive choices when selecting a nest site. Close

• 5. [Article] Behavioral Observation and Paternal Investment of Eastern Kingbirds at Malheur National Wildlife Refuge

  We have been studying the population of Eastern Kingbirds breeding in riparian habitats in Malheur National Wildlife Refuge (eastern Oregon) since 2002. These efforts have created an ideal research environment ...

  Citation × Citation Citation Abstract Copy Title: Behavioral Observation and Paternal Investment of Eastern Kingbirds at Malheur National Wildlife Refuge Author: Chutter, Christopher Michael Year: 2014 We have been studying the population of Eastern Kingbirds breeding in riparian habitats in Malheur National Wildlife Refuge (eastern Oregon) since 2002. These efforts have created an ideal research environment wherein most adults in the population have been color banded and DNA sampled and, as part of other research projects, nearly all broods since 2003 have been paternity tested. I decided to use behavioral video recordings of parental nest behavior undertaken between 2003 and 2010 for two unrelated projects. First, I tested the effectiveness of video sampling nesting behavior (see below and chapter 2). Second, I tested whether male kingbirds were able to affect their level of paternal investment in accordance with their level or realized paternity (see below and chapter 3). Chapter 2 was split into three distinct questions: 1) are parental nesting behaviors repeatable, 2) is a one hour sample sufficient to capture variability in these behaviors, and 3) is the first hour of recording sufficient to capture variability in these behaviors. I found overwhelming evidence that the behaviors I measured were repeatable. This is truly important, for if repeatability was disproven, it would call into question the use of sampling throughout the field of animal behavior. I similarly found strong evidence that a one hour sample was sufficient to capture variability in parental behaviors. From this I was able to suggest that further sampling effort would be better spent increasing sample size rather than observation length. Testing whether the first hour of recording was sufficient to capture variability in parental behavior found more muddled results. While there generally was correlation between behavioral values in the first hour and those over a longer observation period, most behaviors were found to have significantly lower values in the first hour. I tested whether this was the result of a lingering observer effect or a natural effect of time of day and concluded that an observer effect was the more likely explanation. In chapter 3, I ran one of the more in depth and complicated tests for a relationship between paternal investment and realized paternity that I was able to find in the literature. I used the standard male feeding rate as a measure of male investment as well as a far more nuanced measure derived from the first Eigenvector of an analysis of six different paternal behaviors. These were both tested using Akaike's Information Criterion against a number of variables likely to affect parental behavior, including realized paternity. Ultimately, I found no evidence that kingbirds were able to affect paternal investment in response to lost paternity, and conclude that they likely had no means to assess realized paternity within the nest of their social mate. However, from the other parameters tested I was able to find that males increased their investment as brood size increased and as the female spent more time attending, but not feeding, the nestlings. Also, male investment decreased as territory density increased and flight feather length increased. Theory surrounding the variability of extrapair paternity in birds can be used to account for these results. In a denser population males are predicted to reduce paternal effort for one of two reasons: increased likelihood of paternity loss in his own nest and an increased investment in pursuing extrapair copulations of his own. Longer flight feathers are a sign of age and quality in kingbirds, so males with this trait are expected to spend more time pursuing extrapair copulations as they are more likely to be successful in this endeavor. Title: Behavioral Observation and Paternal Investment of Eastern Kingbirds at Malheur National Wildlife Refuge Author: Chutter, Christopher Michael Year: 2014 We have been studying the population of Eastern Kingbirds breeding in riparian habitats in Malheur National Wildlife Refuge (eastern Oregon) since 2002. These efforts have created an ideal research environment wherein most adults in the population have been color banded and DNA sampled and, as part of other research projects, nearly all broods since 2003 have been paternity tested. I decided to use behavioral video recordings of parental nest behavior undertaken between 2003 and 2010 for two unrelated projects. First, I tested the effectiveness of video sampling nesting behavior (see below and chapter 2). Second, I tested whether male kingbirds were able to affect their level of paternal investment in accordance with their level or realized paternity (see below and chapter 3). Chapter 2 was split into three distinct questions: 1) are parental nesting behaviors repeatable, 2) is a one hour sample sufficient to capture variability in these behaviors, and 3) is the first hour of recording sufficient to capture variability in these behaviors. I found overwhelming evidence that the behaviors I measured were repeatable. This is truly important, for if repeatability was disproven, it would call into question the use of sampling throughout the field of animal behavior. I similarly found strong evidence that a one hour sample was sufficient to capture variability in parental behaviors. From this I was able to suggest that further sampling effort would be better spent increasing sample size rather than observation length. Testing whether the first hour of recording was sufficient to capture variability in parental behavior found more muddled results. While there generally was correlation between behavioral values in the first hour and those over a longer observation period, most behaviors were found to have significantly lower values in the first hour. I tested whether this was the result of a lingering observer effect or a natural effect of time of day and concluded that an observer effect was the more likely explanation. In chapter 3, I ran one of the more in depth and complicated tests for a relationship between paternal investment and realized paternity that I was able to find in the literature. I used the standard male feeding rate as a measure of male investment as well as a far more nuanced measure derived from the first Eigenvector of an analysis of six different paternal behaviors. These were both tested using Akaike's Information Criterion against a number of variables likely to affect parental behavior, including realized paternity. Ultimately, I found no evidence that kingbirds were able to affect paternal investment in response to lost paternity, and conclude that they likely had no means to assess realized paternity within the nest of their social mate. However, from the other parameters tested I was able to find that males increased their investment as brood size increased and as the female spent more time attending, but not feeding, the nestlings. Also, male investment decreased as territory density increased and flight feather length increased. Theory surrounding the variability of extrapair paternity in birds can be used to account for these results. In a denser population males are predicted to reduce paternal effort for one of two reasons: increased likelihood of paternity loss in his own nest and an increased investment in pursuing extrapair copulations of his own. Longer flight feathers are a sign of age and quality in kingbirds, so males with this trait are expected to spend more time pursuing extrapair copulations as they are more likely to be successful in this endeavor. Close

• 6. [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

• 7. [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

• 8. [Article] Studies on the distribution and habitat of Demodex folliculorum

  The present study was undertaken to determine the incidence of infestation with Demodex folliculorum, a skin mite parasitizing man, and to investigate those factors which influence its occurrence. These ...

  Citation × Citation Citation Abstract Copy Title: Studies on the distribution and habitat of Demodex folliculorum Author: Gimbol, Michael James Year: 1970 The present study was undertaken to determine the incidence of infestation with Demodex folliculorum, a skin mite parasitizing man, and to investigate those factors which influence its occurrence. These factors were the personal hygiene, sex, age and skin condition of the human host. A detailed view of the habitat of this parasite is also included so that the controversy surrounding its role as a possible pathogen or vector of disease could be explored in light of the current knowledge. A number of sites of infestation were sampled by a number of different techniques. The primary sample site was the nasal area of the face which was examined by slit lamp magnification after chemical application to partially expose the mites. A secondary site involved the eyelash follicles from which the lashes were epilated and examined for mites under the microscope. The 441 subjects examined in the nasal area were tabulated by age, sex and skin condition and the incidence of infestation was computed for each of five age groups. There was a definite increase in incidence of Demodex with the advancing age of the host and the normal and oily skin conditions appeared to be much more involved than the dry skin condition. A similar increase in incidence with advancing age was apparent in the 143 subjects whose eyelashes were examined. The results from both areas exhibited a statistical correlation between the age and skin condition of the human host and the presence of the mites. The explanation of the increase in incidence with the advancing age of the human host is based on the development and secretory rate of the sebaceous glands of the human host. Past studies have shown that Demodex lives in and around the sebaceous glands of the skin and feeds on sebaceous material and cellular debris. The face appears to be the habitat of optimum occurrence which corresponds to the distribution of sebaceous follicles and glands whose size and rate of secretion are greater that those over most of the body. The role of Demodex in the formation of ingrown hairs on the neck is discussed as a possible, new clinical entity. The influence of the host’s personal hygienic habits on demodectic infestation remains rather obscure. Although the accumulation of sebaceous material would tend to favor the maintenance of mites, the reservoirs of the sebaceous follicles of the face in which the mites are found are not affected by normal soap and water cleansing. Inhabitation of the eyelash follicles may be enhanced by ineffective cleansing, but more study is needed to determine the validity of this contention. The finding of selective sites of infestation on the human host led to speculation on the possibility of physiological races of Demodex. Although it is difficult to determine the validity of reports by earlier workers, there appears to be a decreasing trend in the incidence of Demodex folliculorum since its discovery over a century ago. Title: Studies on the distribution and habitat of Demodex folliculorum Author: Gimbol, Michael James Year: 1970 The present study was undertaken to determine the incidence of infestation with Demodex folliculorum, a skin mite parasitizing man, and to investigate those factors which influence its occurrence. These factors were the personal hygiene, sex, age and skin condition of the human host. A detailed view of the habitat of this parasite is also included so that the controversy surrounding its role as a possible pathogen or vector of disease could be explored in light of the current knowledge. A number of sites of infestation were sampled by a number of different techniques. The primary sample site was the nasal area of the face which was examined by slit lamp magnification after chemical application to partially expose the mites. A secondary site involved the eyelash follicles from which the lashes were epilated and examined for mites under the microscope. The 441 subjects examined in the nasal area were tabulated by age, sex and skin condition and the incidence of infestation was computed for each of five age groups. There was a definite increase in incidence of Demodex with the advancing age of the host and the normal and oily skin conditions appeared to be much more involved than the dry skin condition. A similar increase in incidence with advancing age was apparent in the 143 subjects whose eyelashes were examined. The results from both areas exhibited a statistical correlation between the age and skin condition of the human host and the presence of the mites. The explanation of the increase in incidence with the advancing age of the human host is based on the development and secretory rate of the sebaceous glands of the human host. Past studies have shown that Demodex lives in and around the sebaceous glands of the skin and feeds on sebaceous material and cellular debris. The face appears to be the habitat of optimum occurrence which corresponds to the distribution of sebaceous follicles and glands whose size and rate of secretion are greater that those over most of the body. The role of Demodex in the formation of ingrown hairs on the neck is discussed as a possible, new clinical entity. The influence of the host’s personal hygienic habits on demodectic infestation remains rather obscure. Although the accumulation of sebaceous material would tend to favor the maintenance of mites, the reservoirs of the sebaceous follicles of the face in which the mites are found are not affected by normal soap and water cleansing. Inhabitation of the eyelash follicles may be enhanced by ineffective cleansing, but more study is needed to determine the validity of this contention. The finding of selective sites of infestation on the human host led to speculation on the possibility of physiological races of Demodex. Although it is difficult to determine the validity of reports by earlier workers, there appears to be a decreasing trend in the incidence of Demodex folliculorum since its discovery over a century ago. Close

• 9. [Article] Vocalizations of the Townsend chipmunk (Eutamias townsendii)

  This study describes and analyzes the vocalizations of the Townsend chipmunk (Eutamias townsendii) in Oregon. Tape recordings of calls were collected primarily from Forest Park in Portland (Oregon) during ...

  Citation × Citation Citation Abstract Copy Title: Vocalizations of the Townsend chipmunk (Eutamias townsendii) Author: Warner, Greig Michael Year: 1971 This study describes and analyzes the vocalizations of the Townsend chipmunk (Eutamias townsendii) in Oregon. Tape recordings of calls were collected primarily from Forest Park in Portland (Oregon) during 1970 and 1971, and sonograms of these recordings were produced. Findings were compared with those of Brand (1970) who investigated E. townsendii vocalizations in California. The prominent calls in the vocal repertoire of townsendii are the quist, the quirt, and the chipper. These calls all appear to be warning calls. The quist note is a a chevron-shaped (A) figure representing a sound which begins at a low frequency (1-2 KC), sharply rises to a peak at about 11 KC, and then drops sharply to the lower frequencies again. Quists are arranged into bursts, and bursts into sequences. The number of quists per burst and the frequency of the top of the note decreased significantly over time. The interval between burst increased significantly, while the interval between quists seems to increase over time. The variation in the quist rate and related character6istics between Oregon and California townsendii populations is probably a result of subspecific differences. There seems to be a trend in the sciurids from the specific vocal system (one definite meaning per call) of the forest dwellers towards the unspecific vocal systems of animal groups which live in the more open habitats. E. townsendii displays a specific vocal system in which each call seems to have a specific function. Title: Vocalizations of the Townsend chipmunk (Eutamias townsendii) Author: Warner, Greig Michael Year: 1971 This study describes and analyzes the vocalizations of the Townsend chipmunk (Eutamias townsendii) in Oregon. Tape recordings of calls were collected primarily from Forest Park in Portland (Oregon) during 1970 and 1971, and sonograms of these recordings were produced. Findings were compared with those of Brand (1970) who investigated E. townsendii vocalizations in California. The prominent calls in the vocal repertoire of townsendii are the quist, the quirt, and the chipper. These calls all appear to be warning calls. The quist note is a a chevron-shaped (A) figure representing a sound which begins at a low frequency (1-2 KC), sharply rises to a peak at about 11 KC, and then drops sharply to the lower frequencies again. Quists are arranged into bursts, and bursts into sequences. The number of quists per burst and the frequency of the top of the note decreased significantly over time. The interval between burst increased significantly, while the interval between quists seems to increase over time. The variation in the quist rate and related character6istics between Oregon and California townsendii populations is probably a result of subspecific differences. There seems to be a trend in the sciurids from the specific vocal system (one definite meaning per call) of the forest dwellers towards the unspecific vocal systems of animal groups which live in the more open habitats. E. townsendii displays a specific vocal system in which each call seems to have a specific function. Close

• 10. [Article] Developing and Calibrating the Hydrodynamic and Water Quality Model CE-QUAL-W2 for Banks Lake Washington

  Located in central Washington State, Banks Lake serves as an irrigation storage reservoir for the Columbia Basin Irrigation Project and is home to a diverse fisheries population. The current hydrologic ...

  Citation × Citation Citation Abstract Copy Title: Developing and Calibrating the Hydrodynamic and Water Quality Model CE-QUAL-W2 for Banks Lake Washington Author: McCulloch, Andrew John Year: 2011 Located in central Washington State, Banks Lake serves as an irrigation storage reservoir for the Columbia Basin Irrigation Project and is home to a diverse fisheries population. The current hydrologic management strategies used for Banks Lake have been chosen to serve two purposes: to adequately store and provide irrigation water for the Columbia Basin Irrigation Project and to maintain a healthy aquatic environment suitable for the growth and habitation of local flora and fauna. Increased needs for irrigation water within arid central Washington poses additional challenges to reservoir managers so that irrigation needs are met without damaging the present aquatic environment within Banks Lake. Future plans by the Washington Department of Ecology to use Banks Lake storage to replenish ground water reserves of the Odessa Subarea aquifer have required an investigation into how increased seasonal drawdown may affect fish growth, fish habitat and overall limnology of Banks Lake. The goal of this project is to produce a hydrodynamic and water quality model of Banks Lake that can predict the impacts of management strategies on the lake's water quality and the linkage of lake management to fish habitat. Title: Developing and Calibrating the Hydrodynamic and Water Quality Model CE-QUAL-W2 for Banks Lake Washington Author: McCulloch, Andrew John Year: 2011 Located in central Washington State, Banks Lake serves as an irrigation storage reservoir for the Columbia Basin Irrigation Project and is home to a diverse fisheries population. The current hydrologic management strategies used for Banks Lake have been chosen to serve two purposes: to adequately store and provide irrigation water for the Columbia Basin Irrigation Project and to maintain a healthy aquatic environment suitable for the growth and habitation of local flora and fauna. Increased needs for irrigation water within arid central Washington poses additional challenges to reservoir managers so that irrigation needs are met without damaging the present aquatic environment within Banks Lake. Future plans by the Washington Department of Ecology to use Banks Lake storage to replenish ground water reserves of the Odessa Subarea aquifer have required an investigation into how increased seasonal drawdown may affect fish growth, fish habitat and overall limnology of Banks Lake. The goal of this project is to produce a hydrodynamic and water quality model of Banks Lake that can predict the impacts of management strategies on the lake's water quality and the linkage of lake management to fish habitat. Close

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

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

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

• 12. [Article] The Response of Zooplankton Communities in Montane Lakes of Different Fish Stocking Histories to Atmospheric Nitrogen Deposition Simulations

  Freshwater ecosystems are subject to a wide variety of stressors, which can have complex interactions and result in ecological surprises. Non-native fish introductions have drastically reduced the number ...

  Citation × Citation Citation Abstract Copy Title: The Response of Zooplankton Communities in Montane Lakes of Different Fish Stocking Histories to Atmospheric Nitrogen Deposition Simulations Author: Brittain, Jeffrey Thomas Year: 2015 Freshwater ecosystems are subject to a wide variety of stressors, which can have complex interactions and result in ecological surprises. Non-native fish introductions have drastically reduced the number of naturally fishless lakes and have resulted in cascading food web repercussions in aquatic and terrestrial habitats. Additional anthropogenic influences that result from increases in global airborne emissions also threaten wildlife habitat. Atmospheric nitrogen deposition has been recognized as an anthropogenic contributor to acidification and eutrophication of wilderness ecosystems. Planktonic communities have shown declines in response to predation and shifts in composition as a result of nutrient inputs and acidification, both of which are potential fates of nitrogen deposition. This study identified the response of zooplankton communities from two lakes (fish present vs. absent) in Mount Rainier National Park to manipulations simulating an episodic disturbance event in mesocosms. The experiment used a 2 x 2 factorial design with acid and nitrogen treatments. Treatments resulted in significantly elevated nitrogen and decreased pH conditions from control mesocosms over 42 days, indicating that the treatment effects were achieved. Results indicate that zooplankton communities from lakes with different food web structure respond differently to the singular effects of acid and nitrogen addition. Surprisingly, the interaction of the two stressors was related to increases in community metrics (e.g., abundance, biomass, body size, richness, and Shannon-Weiner diversity) for both lake types. This work can aid management decisions as agencies look to restore more aquatic montane habitats to their historic fishless states, and assess their abilities to recover and afford resistance to atmospheric pollution. Title: The Response of Zooplankton Communities in Montane Lakes of Different Fish Stocking Histories to Atmospheric Nitrogen Deposition Simulations Author: Brittain, Jeffrey Thomas Year: 2015 Freshwater ecosystems are subject to a wide variety of stressors, which can have complex interactions and result in ecological surprises. Non-native fish introductions have drastically reduced the number of naturally fishless lakes and have resulted in cascading food web repercussions in aquatic and terrestrial habitats. Additional anthropogenic influences that result from increases in global airborne emissions also threaten wildlife habitat. Atmospheric nitrogen deposition has been recognized as an anthropogenic contributor to acidification and eutrophication of wilderness ecosystems. Planktonic communities have shown declines in response to predation and shifts in composition as a result of nutrient inputs and acidification, both of which are potential fates of nitrogen deposition. This study identified the response of zooplankton communities from two lakes (fish present vs. absent) in Mount Rainier National Park to manipulations simulating an episodic disturbance event in mesocosms. The experiment used a 2 x 2 factorial design with acid and nitrogen treatments. Treatments resulted in significantly elevated nitrogen and decreased pH conditions from control mesocosms over 42 days, indicating that the treatment effects were achieved. Results indicate that zooplankton communities from lakes with different food web structure respond differently to the singular effects of acid and nitrogen addition. Surprisingly, the interaction of the two stressors was related to increases in community metrics (e.g., abundance, biomass, body size, richness, and Shannon-Weiner diversity) for both lake types. This work can aid management decisions as agencies look to restore more aquatic montane habitats to their historic fishless states, and assess their abilities to recover and afford resistance to atmospheric pollution. Close

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

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

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

• 14. [Article] Propagule Pressure and Disturbance Drive the Spread of an Invasive Grass, Brachypodium sylvaticum

  The invasibility, or susceptibility of an ecosystem to biological invasion is influenced by changes in biotic and abiotic resistance often due to shifts in disturbance regime. The magnitude of invasive ...

  Citation × Citation Citation Abstract Copy Title: Propagule Pressure and Disturbance Drive the Spread of an Invasive Grass, Brachypodium sylvaticum Author: Taylor, Laura Alayna Year: 2011 The invasibility, or susceptibility of an ecosystem to biological invasion is influenced by changes in biotic and abiotic resistance often due to shifts in disturbance regime. The magnitude of invasive propagule pressure interacts with an ecosystem's invasibility to determine the extent of a biological invasion. I examined how propagule pressure, forest community structure and disturbance interact to influence the invasibility of temperate Pacific Northwest forests by the newly-invasive grass, Brachypodium sylvaticum. My goal was to identify which of these factors is most instrumental in enabling the shift from establishment to population growth in B. sylvaticum at the edge of its expanding range. Both observational and experimental studies were employed to identify the many ecological components of this problem. Ecological sampling methods were used to identify trends in B. sylvaticum habitat preference and signs of habitat disturbance. In addition, an experimental study was performed to test the effects of soil and vegetation disturbance on B. sylvaticum seedling propagation. I found that while soil disturbance did not have a significant effect on seedling propagation, vegetation disturbance was implicated in B. sylvaticum spread. Higher propagule pressure and coniferous forest type were also strong predictors of increased B. sylvaticum seedling propagation and survival within established sites. My study demonstrates how propagule pressure and plant community dynamics interact to shift the invasibility of Pacific Northwest forests and facilitate the transition from establishment to spread in the invasion of B. sylvaticum. Title: Propagule Pressure and Disturbance Drive the Spread of an Invasive Grass, Brachypodium sylvaticum Author: Taylor, Laura Alayna Year: 2011 The invasibility, or susceptibility of an ecosystem to biological invasion is influenced by changes in biotic and abiotic resistance often due to shifts in disturbance regime. The magnitude of invasive propagule pressure interacts with an ecosystem's invasibility to determine the extent of a biological invasion. I examined how propagule pressure, forest community structure and disturbance interact to influence the invasibility of temperate Pacific Northwest forests by the newly-invasive grass, Brachypodium sylvaticum. My goal was to identify which of these factors is most instrumental in enabling the shift from establishment to population growth in B. sylvaticum at the edge of its expanding range. Both observational and experimental studies were employed to identify the many ecological components of this problem. Ecological sampling methods were used to identify trends in B. sylvaticum habitat preference and signs of habitat disturbance. In addition, an experimental study was performed to test the effects of soil and vegetation disturbance on B. sylvaticum seedling propagation. I found that while soil disturbance did not have a significant effect on seedling propagation, vegetation disturbance was implicated in B. sylvaticum spread. Higher propagule pressure and coniferous forest type were also strong predictors of increased B. sylvaticum seedling propagation and survival within established sites. My study demonstrates how propagule pressure and plant community dynamics interact to shift the invasibility of Pacific Northwest forests and facilitate the transition from establishment to spread in the invasion of B. sylvaticum. Close

• 15. [Article] Bird use of revetted riverbanks in the Willamette Valley

  Over 115 miles of rock revetments that serve to protect river banks have been constructed in the Willamette Basin. In this study the spring and summer bird use of Willamette Basin revetments is examined. ...

  Citation × Citation Citation Abstract Copy Title: Bird use of revetted riverbanks in the Willamette Valley Author: Perry, Clifford Brian Year: 1977 Over 115 miles of rock revetments that serve to protect river banks have been constructed in the Willamette Basin. In this study the spring and summer bird use of Willamette Basin revetments is examined. Revetments that had not been recently cleared of most woody vegetation and blackberries were found to have significantly greater total and breeding bird use than cleared revetments. Possible factors affecting bird use, such as vegetation on revetments and vegetation adjacent to revetments are examined using linear regression analysis. The results of this study are compared with results of previous work in riparian forests along the Columbia River. It is concluded that revetments represent significant avian habitat, especially for "edge species," and that present maintenance practices involving removal of vegetation adversely affect bird use. Title: Bird use of revetted riverbanks in the Willamette Valley Author: Perry, Clifford Brian Year: 1977 Over 115 miles of rock revetments that serve to protect river banks have been constructed in the Willamette Basin. In this study the spring and summer bird use of Willamette Basin revetments is examined. Revetments that had not been recently cleared of most woody vegetation and blackberries were found to have significantly greater total and breeding bird use than cleared revetments. Possible factors affecting bird use, such as vegetation on revetments and vegetation adjacent to revetments are examined using linear regression analysis. The results of this study are compared with results of previous work in riparian forests along the Columbia River. It is concluded that revetments represent significant avian habitat, especially for "edge species," and that present maintenance practices involving removal of vegetation adversely affect bird use. Close

• 16. [Article] Predator Exclosures, Predator Removal, and Habitat Improvement Increase Nest Success of Snowy Plovers in Oregon, USA

  Management to increase reproductive success is commonly used to aid recovery of threatened and endangered species. The Western Snowy Plover (Charadrius nivosus nivosus) breeds from coastal Washington, ...

  Citation × Citation Citation Abstract Copy Title: Predator Exclosures, Predator Removal, and Habitat Improvement Increase Nest Success of Snowy Plovers in Oregon, USA Author: Dinsmore, Stephen J., Lauten, David J., Castelein, Kathleen J., Gaines, Eleanor P., Stern, Mark A. Year: 2014 Management to increase reproductive success is commonly used to aid recovery of threatened and endangered species. The Western Snowy Plover (Charadrius nivosus nivosus) breeds from coastal Washington, USA, to Baja California, Mexico, and in disjunct interior sites. The Pacific coast population is federally listed as Threatened; habitat loss and nest loss to a suite of terrestrial and avian predators are thought to be primary factors limiting population growth in this species. In coastal Oregon, USA, a consortium of state and federal management agencies deployed nest exclosures on active Snowy Plover nests, initiated a lethal predator management program, and conducted local-scale habitat management in an effort to boost local productivity. During 1990–2009, we monitored 1,951 Snowy Plover nests at 9 sites with varying treatments. We examined the effectiveness of 3 types of nest exclosures (large, small, and outfitted with electric wire), predator removal, and habitat management on nest survival. Habitat management to remove invasive grasses and provide more suitable nesting substrate more than doubled nest survival. Predator management or use of any of the 3 types of exclosures also affected nest survival. There appeared to be no additional benefit to using both approaches, but the biological relevance of these findings is unclear because of site differences in treatments applied. Importantly, these management techniques only affected nesting success; their effect on other contributions to population viability (e.g., fledging success) was not correlated with nesting success. This long-term study illustrates the short-term benefits and tradeoffs of using nest exclosures, predator management, and habitat restoration to improve nesting success. Although we gained broader insight into the relative efficacy of common management techniques to improve avian nesting success, we cannot yet determine how improved nest success contributes to population growth. Title: Predator Exclosures, Predator Removal, and Habitat Improvement Increase Nest Success of Snowy Plovers in Oregon, USA Author: Dinsmore, Stephen J., Lauten, David J., Castelein, Kathleen J., Gaines, Eleanor P., Stern, Mark A. Year: 2014 Management to increase reproductive success is commonly used to aid recovery of threatened and endangered species. The Western Snowy Plover (Charadrius nivosus nivosus) breeds from coastal Washington, USA, to Baja California, Mexico, and in disjunct interior sites. The Pacific coast population is federally listed as Threatened; habitat loss and nest loss to a suite of terrestrial and avian predators are thought to be primary factors limiting population growth in this species. In coastal Oregon, USA, a consortium of state and federal management agencies deployed nest exclosures on active Snowy Plover nests, initiated a lethal predator management program, and conducted local-scale habitat management in an effort to boost local productivity. During 1990–2009, we monitored 1,951 Snowy Plover nests at 9 sites with varying treatments. We examined the effectiveness of 3 types of nest exclosures (large, small, and outfitted with electric wire), predator removal, and habitat management on nest survival. Habitat management to remove invasive grasses and provide more suitable nesting substrate more than doubled nest survival. Predator management or use of any of the 3 types of exclosures also affected nest survival. There appeared to be no additional benefit to using both approaches, but the biological relevance of these findings is unclear because of site differences in treatments applied. Importantly, these management techniques only affected nesting success; their effect on other contributions to population viability (e.g., fledging success) was not correlated with nesting success. This long-term study illustrates the short-term benefits and tradeoffs of using nest exclosures, predator management, and habitat restoration to improve nesting success. Although we gained broader insight into the relative efficacy of common management techniques to improve avian nesting success, we cannot yet determine how improved nest success contributes to population growth. Close

• 17. [Article] Hydrodynamic and Water Quality Modeling of the Chehalis River in Washington

  The Chehalis River Basin is located in the southwest region of Washington and is over 125 miles long flowing through agricultural, residential, industrial, and forest land. Four major rivers, many smaller ...

  Citation × Citation Citation Abstract Copy Title: Hydrodynamic and Water Quality Modeling of the Chehalis River in Washington Author: Van Glubt, Sarah, Wells, Scott A., Berger, Chris J. Year: 2017 The Chehalis River Basin is located in the southwest region of Washington and is over 125 miles long flowing through agricultural, residential, industrial, and forest land. Four major rivers, many smaller creeks, five wastewater treatment plants, and groundwater discharge to the Chehalis River. Flooding is a major problem in the relatively flat areas surrounding the cities of Chehalis and Centralia. As a result, construction of a flood-control dam in the upper basin has been proposed. One major concern of constructing a dam is the potentially severe impacts to fish health and habitat. The Chehalis River has routinely violated water quality standards for primarily temperature and dissolved oxygen. CE-QUAL-W2, a two-dimensional (longitudinal and vertical) hydrodynamic and water quality model, was used to simulate the Chehalis River, including free flowing river stretches and stratified (in summer) lake-like stretches. The goals of this research were to assess the flood retention structure’s impacts to water quality, as well as river responses to potential climate change scenarios. In order to use the model to achieve these goals, calibration to field data for flow, temperature, and water quality constituents was performed for the years 2013 and 2014. Once calibration was complete, model scenarios for future climate conditions and dam operating regimes were conducted. Future conditions showed predictions of warmer water temperatures and slight changes to water quality conditions on the river. As fish in the area prefer cooler water temperatures, this could pose a threat to fish health and habitat. Flood retention structures with the purpose of flood retention only (only operating during times of flooding) gave model predictions for daily maximum temperature higher than structures that employed flood retention and flow augmentation (operating during all times of the year). This suggested the management of flow passage or retention by the dam is important for water quality on the river. Title: Hydrodynamic and Water Quality Modeling of the Chehalis River in Washington Author: Van Glubt, Sarah, Wells, Scott A., Berger, Chris J. Year: 2017 The Chehalis River Basin is located in the southwest region of Washington and is over 125 miles long flowing through agricultural, residential, industrial, and forest land. Four major rivers, many smaller creeks, five wastewater treatment plants, and groundwater discharge to the Chehalis River. Flooding is a major problem in the relatively flat areas surrounding the cities of Chehalis and Centralia. As a result, construction of a flood-control dam in the upper basin has been proposed. One major concern of constructing a dam is the potentially severe impacts to fish health and habitat. The Chehalis River has routinely violated water quality standards for primarily temperature and dissolved oxygen. CE-QUAL-W2, a two-dimensional (longitudinal and vertical) hydrodynamic and water quality model, was used to simulate the Chehalis River, including free flowing river stretches and stratified (in summer) lake-like stretches. The goals of this research were to assess the flood retention structure’s impacts to water quality, as well as river responses to potential climate change scenarios. In order to use the model to achieve these goals, calibration to field data for flow, temperature, and water quality constituents was performed for the years 2013 and 2014. Once calibration was complete, model scenarios for future climate conditions and dam operating regimes were conducted. Future conditions showed predictions of warmer water temperatures and slight changes to water quality conditions on the river. As fish in the area prefer cooler water temperatures, this could pose a threat to fish health and habitat. Flood retention structures with the purpose of flood retention only (only operating during times of flooding) gave model predictions for daily maximum temperature higher than structures that employed flood retention and flow augmentation (operating during all times of the year). This suggested the management of flow passage or retention by the dam is important for water quality on the river. Close

• 18. [Article] Forest Management Scenarios in a Changing Climate: Trade-Offs Between Carbon, Timber, and Old Forest

  Balancing economic, ecological, and social values has long been a challenge in the forests of the Pacific Northwest, where conflict over timber harvest and old-growth habitat on public lands has been contentious ...

  Citation × Citation Citation Abstract Copy Title: Forest Management Scenarios in a Changing Climate: Trade-Offs Between Carbon, Timber, and Old Forest Author: Scheller, Robert M., Creutzburg, Megan K., Lucash, Melissa S., LeDuc, Stephen D., Johnson, Mark G. Year: 2017 Balancing economic, ecological, and social values has long been a challenge in the forests of the Pacific Northwest, where conflict over timber harvest and old-growth habitat on public lands has been contentious for the past several decades. The Northwest Forest Plan, adopted two decades ago to guide management on federal lands, is currently being revised as the region searches for a balance between sustainable timber yields and habitat for sensitive species. In addition, climate change imposes a high degree of uncertainty on future forest productivity, sustainability of timber harvest, wildfire risk, and species habitat. We evaluated the long-term, landscape-scale trade-offs among carbon (C) storage, timber yield, and old forest habitat given projected climate change and shifts in forest management policy across 2.1 million hectares of forests in the Oregon Coast Range. Projections highlight the divergence between private and public lands under business-as-usual forest management, where private industrial forests are heavily harvested and many public (especially federal) lands increase C and old forest over time but provide little timber. Three alternative management scenarios altering the amount and type of timber harvest show widely varying levels of ecosystem C and old-forest habitat. On federal lands, ecological forestry practices also allowed a simultaneous increase in old forest and natural early-seral habitat. The ecosystem C implications of shifts away from current practices were large, with current practices retaining up to 105 Tg more C than the alternative scenarios by the end of the century. Our results suggest climate change is likely to increase forest productivity by 30–41% and total ecosystem C storage by 11–15% over the next century as warmer winter temperatures allow greater forest productivity in cooler months. These gains in C storage are unlikely to be offset by wildfire under climate change, due to the legacy of management and effective fire suppression. Our scenarios of future conditions can inform policy makers, land managers, and the public about the potential effects of land management alternatives, climate change, and the trade-offs that are inherent to management and policy in the region. Title: Forest Management Scenarios in a Changing Climate: Trade-Offs Between Carbon, Timber, and Old Forest Author: Scheller, Robert M., Creutzburg, Megan K., Lucash, Melissa S., LeDuc, Stephen D., Johnson, Mark G. Year: 2017 Balancing economic, ecological, and social values has long been a challenge in the forests of the Pacific Northwest, where conflict over timber harvest and old-growth habitat on public lands has been contentious for the past several decades. The Northwest Forest Plan, adopted two decades ago to guide management on federal lands, is currently being revised as the region searches for a balance between sustainable timber yields and habitat for sensitive species. In addition, climate change imposes a high degree of uncertainty on future forest productivity, sustainability of timber harvest, wildfire risk, and species habitat. We evaluated the long-term, landscape-scale trade-offs among carbon (C) storage, timber yield, and old forest habitat given projected climate change and shifts in forest management policy across 2.1 million hectares of forests in the Oregon Coast Range. Projections highlight the divergence between private and public lands under business-as-usual forest management, where private industrial forests are heavily harvested and many public (especially federal) lands increase C and old forest over time but provide little timber. Three alternative management scenarios altering the amount and type of timber harvest show widely varying levels of ecosystem C and old-forest habitat. On federal lands, ecological forestry practices also allowed a simultaneous increase in old forest and natural early-seral habitat. The ecosystem C implications of shifts away from current practices were large, with current practices retaining up to 105 Tg more C than the alternative scenarios by the end of the century. Our results suggest climate change is likely to increase forest productivity by 30–41% and total ecosystem C storage by 11–15% over the next century as warmer winter temperatures allow greater forest productivity in cooler months. These gains in C storage are unlikely to be offset by wildfire under climate change, due to the legacy of management and effective fire suppression. Our scenarios of future conditions can inform policy makers, land managers, and the public about the potential effects of land management alternatives, climate change, and the trade-offs that are inherent to management and policy in the region. Close

• 19. [Article] Environmental DNA (eDNA) Detects the Invasive Crayfishes Orconectes rusticus and Pacifastacus leniusculus in Large Lakes of North America

  We report results of a study that made reciprocal comparisons of environmental DNA (eDNA) assays for two major invasive crayfishes between their disparate invasive ranges in North America. Specifically, ...

  Citation × Citation Citation Abstract Copy Title: Environmental DNA (eDNA) Detects the Invasive Crayfishes Orconectes rusticus and Pacifastacus leniusculus in Large Lakes of North America Author: Larson, Eric R., Renshaw, Mark A., Gantz, Crysta A., Umek, John, Chandra, Sudeep, Lodge, David M., Egan, Scott P. Year: 2017 We report results of a study that made reciprocal comparisons of environmental DNA (eDNA) assays for two major invasive crayfishes between their disparate invasive ranges in North America. Specifically, we tested for range expansions of the signal crayfish Pacifastacus leniusculus (Dana, 1852) into the Laurentian Great Lakes region known to be invaded by the rusty crayfish Orconectes rusticus (Girard, 1852), as well as for the invasion of O. rusticus into large lakes of California and Nevada, US known to be invaded by P. leniusculus. We compared eDNA detections to historic localities for O. rusticus within the Great Lakes, and to recent sampling for presence/absence and relative abundance of P. leniusculus in California and Nevada via overnight sets of baited traps. We successfully detected O. rusticus eDNA at six sites from the Great Lakes and P. leniusculus from six of seven lakes where it was known to occur in California and Nevada, but did not detect any range expansions by either species across the North American continent. eDNA appears suitable to detect benthic arthropods from exceptionally large lakes, and will likely be useful in applications for monitoring of new biological invasions into these and other freshwater and marine habitats. Title: Environmental DNA (eDNA) Detects the Invasive Crayfishes Orconectes rusticus and Pacifastacus leniusculus in Large Lakes of North America Author: Larson, Eric R., Renshaw, Mark A., Gantz, Crysta A., Umek, John, Chandra, Sudeep, Lodge, David M., Egan, Scott P. Year: 2017 We report results of a study that made reciprocal comparisons of environmental DNA (eDNA) assays for two major invasive crayfishes between their disparate invasive ranges in North America. Specifically, we tested for range expansions of the signal crayfish Pacifastacus leniusculus (Dana, 1852) into the Laurentian Great Lakes region known to be invaded by the rusty crayfish Orconectes rusticus (Girard, 1852), as well as for the invasion of O. rusticus into large lakes of California and Nevada, US known to be invaded by P. leniusculus. We compared eDNA detections to historic localities for O. rusticus within the Great Lakes, and to recent sampling for presence/absence and relative abundance of P. leniusculus in California and Nevada via overnight sets of baited traps. We successfully detected O. rusticus eDNA at six sites from the Great Lakes and P. leniusculus from six of seven lakes where it was known to occur in California and Nevada, but did not detect any range expansions by either species across the North American continent. eDNA appears suitable to detect benthic arthropods from exceptionally large lakes, and will likely be useful in applications for monitoring of new biological invasions into these and other freshwater and marine habitats. Close

• 20. [Article] Analysis of ferredoxin and flavodoxin in Anabaena and Trichodesmium using fast protein liquid chromatography

  Iron is an essential nutrient for growth of photosynthetic microorganisms such as cyanobacteria and algae. Iron is required for proteins involved in the important processes of carbon and nitrogen assimilation. ...

  Citation × Citation Citation Abstract Copy Title: Analysis of ferredoxin and flavodoxin in Anabaena and Trichodesmium using fast protein liquid chromatography Author: Jones, Karen Lorraine Year: 1988 Iron is an essential nutrient for growth of photosynthetic microorganisms such as cyanobacteria and algae. Iron is required for proteins involved in the important processes of carbon and nitrogen assimilation. Low concentrations of iron in cultures or natural waters can lead to iron limitation which affects many aspects of algal metabolism. In natural waters, iron limitation can have effects on the patterns and rates of primary productivity. The cellular content of certain proteins can be affected by media iron concentrations. Methods have been used that assay components of the cell as an indirect measure of iron nutritional status. For example, spectroscopy can be performed to determine the cellular concentration of iron-containing proteins involved in photosynthesis. Organisms grown in media that imitate natural conditions, or organisms collected from their natural habitat are usually dilute. Methods that assay iron nutritional status such as spectroscopy and column chromatography require large sample sizes which are difficult to obtain from natural samples. In addition, methods that utilize techniques such as immunology or radioactive labelling are complex and time-consuming. These considerations led to the necessity of developing a technique that would be simple, rapid and effective on dilute samples. The method developed here utilized fast protein liquid chromatography (FPLC), which fulfilled these requirements. A complete analysis could be done within two to three hours with minimal sample treatment. The FPLC was simple to operate and was effective on a sample containing less than 100 μg of protein. Some photosynthetic organisms, when iron-depleted, can produce the flavin-containing protein flavodoxin (Flv). This protein substitutes for the iron-containing protein ferredoxin (Fd) in Fd-dependent reactions such as the light-induced reduction of NADP. The FPLC technique identified and quantified, in relative terms, Fd and Flv in the cell. Optical spectroscopy was used to verify FPLC retention time assignments. The results illustrated how the FPLC could be used to observe the changes in relative Fd and Flv content as a function of media iron concentration in cultures of the cyanobacterium Anabaena grown in the laboratory. It was found that Fd content decreased and Flv content increased with decreasing media iron concentration. In addition, samples of the cyanobacterium Trichodesmium collected from the ocean near Barbados were analyzed using FPLC to assay relative Fd and Flv content. By analogy with Anabaena, Fd and Flv retention times were identified. Using this technique conclusions could be drawn regarding the changing iron nutritional status of Trichodesmium in its natural habitat . Title: Analysis of ferredoxin and flavodoxin in Anabaena and Trichodesmium using fast protein liquid chromatography Author: Jones, Karen Lorraine Year: 1988 Iron is an essential nutrient for growth of photosynthetic microorganisms such as cyanobacteria and algae. Iron is required for proteins involved in the important processes of carbon and nitrogen assimilation. Low concentrations of iron in cultures or natural waters can lead to iron limitation which affects many aspects of algal metabolism. In natural waters, iron limitation can have effects on the patterns and rates of primary productivity. The cellular content of certain proteins can be affected by media iron concentrations. Methods have been used that assay components of the cell as an indirect measure of iron nutritional status. For example, spectroscopy can be performed to determine the cellular concentration of iron-containing proteins involved in photosynthesis. Organisms grown in media that imitate natural conditions, or organisms collected from their natural habitat are usually dilute. Methods that assay iron nutritional status such as spectroscopy and column chromatography require large sample sizes which are difficult to obtain from natural samples. In addition, methods that utilize techniques such as immunology or radioactive labelling are complex and time-consuming. These considerations led to the necessity of developing a technique that would be simple, rapid and effective on dilute samples. The method developed here utilized fast protein liquid chromatography (FPLC), which fulfilled these requirements. A complete analysis could be done within two to three hours with minimal sample treatment. The FPLC was simple to operate and was effective on a sample containing less than 100 μg of protein. Some photosynthetic organisms, when iron-depleted, can produce the flavin-containing protein flavodoxin (Flv). This protein substitutes for the iron-containing protein ferredoxin (Fd) in Fd-dependent reactions such as the light-induced reduction of NADP. The FPLC technique identified and quantified, in relative terms, Fd and Flv in the cell. Optical spectroscopy was used to verify FPLC retention time assignments. The results illustrated how the FPLC could be used to observe the changes in relative Fd and Flv content as a function of media iron concentration in cultures of the cyanobacterium Anabaena grown in the laboratory. It was found that Fd content decreased and Flv content increased with decreasing media iron concentration. In addition, samples of the cyanobacterium Trichodesmium collected from the ocean near Barbados were analyzed using FPLC to assay relative Fd and Flv content. By analogy with Anabaena, Fd and Flv retention times were identified. Using this technique conclusions could be drawn regarding the changing iron nutritional status of Trichodesmium in its natural habitat . Close

• 21. [Article] Ecological Investigations to Select Mitigation Options to Reduce Vehicle-Caused Mortality of a Threatened Butterfly

  Whereas roads that bisect habitat are known to decrease population size through animal-vehicle collisions or interruption of key life history events, it is not always obvious how to reduce such impacts, ...

  Citation × Citation Citation Abstract Copy Title: Ecological Investigations to Select Mitigation Options to Reduce Vehicle-Caused Mortality of a Threatened Butterfly Author: Zielin, Sara B., Littlejohn, Jalene, de Rivera, Catherine E., Smith, Winston P., Jacobson, Sandra L. Year: 2016 Whereas roads that bisect habitat are known to decrease population size through animal-vehicle collisions or interruption of key life history events, it is not always obvious how to reduce such impacts, especially for flying organisms. We needed a quick, cost-efficient and effective way to determine how best to decrease vehicle-caused mortality while maintaining habitat connectivity for the federally listed Oregon silverspot butterfly, Speyeria zerene hippolyta. Therefore, we gathered targeted ecological information that informed selection of a mitigation option prior to implementation. We sampled butterfly behavior and environmental conditions along a highway and conducted a small-scale experiment along a decommissioned road corridor used by these butterflies. Using our findings, we recommended vegetation management and helped managers eliminate options they were considering that would be ineffective such as increasing shade or wind in the road, and installing fencing or hedgerows aimed at directing flight above traffic. This quick and inexpensive approach of using ecological observations and small-scale experiments to evaluate the likely success of each available mitigation option can be used to determine effective, species-specific solutions for reducing traffic impacts on pollinators and other small, flying organisms of conservation concern. Title: Ecological Investigations to Select Mitigation Options to Reduce Vehicle-Caused Mortality of a Threatened Butterfly Author: Zielin, Sara B., Littlejohn, Jalene, de Rivera, Catherine E., Smith, Winston P., Jacobson, Sandra L. Year: 2016 Whereas roads that bisect habitat are known to decrease population size through animal-vehicle collisions or interruption of key life history events, it is not always obvious how to reduce such impacts, especially for flying organisms. We needed a quick, cost-efficient and effective way to determine how best to decrease vehicle-caused mortality while maintaining habitat connectivity for the federally listed Oregon silverspot butterfly, Speyeria zerene hippolyta. Therefore, we gathered targeted ecological information that informed selection of a mitigation option prior to implementation. We sampled butterfly behavior and environmental conditions along a highway and conducted a small-scale experiment along a decommissioned road corridor used by these butterflies. Using our findings, we recommended vegetation management and helped managers eliminate options they were considering that would be ineffective such as increasing shade or wind in the road, and installing fencing or hedgerows aimed at directing flight above traffic. This quick and inexpensive approach of using ecological observations and small-scale experiments to evaluate the likely success of each available mitigation option can be used to determine effective, species-specific solutions for reducing traffic impacts on pollinators and other small, flying organisms of conservation concern. Close

• 22. [Article] Nesting Microhabitat Use by a Ground-nesting Songbird: Strict Preferences or Random Choice?

  Nest site choice of birds has the potential to affect predation rates on nests and reproductive success for many bird species, and is thus tied closely to fitness. Vegetation at a particular site influences ...

  Citation × Citation Citation Abstract Copy Title: Nesting Microhabitat Use by a Ground-nesting Songbird: Strict Preferences or Random Choice? Author: Allen, Jazzmine Year: 2016 Nest site choice of birds has the potential to affect predation rates on nests and reproductive success for many bird species, and is thus tied closely to fitness. Vegetation at a particular site influences concealment (and predation rate as a result). Research has shown that birds of various species base nest site choice on variables like nest height, and especially vegetation cover within the microhabitat around a site. I studied nest site choice in ground-nesting birds, which tend to experience high predation rates near the nest site, and therefore might be expected to be particular choosy about vegetation near the nest. I used Spotted Towhees (Pipilo maculatus) nesting in Lesser Park in Portland, OR, as a model species for ground-nesting birds. I compared Spotted Towhees nest sites (n = 15) to both randomly-chosen sites within 10 m of the nests (n = 15; random territory sites) and other randomly-chosen locations throughout the park (n = 25; random park locations) to test whether vegetation structure and floristic composition differed. I measured (1) vegetation height and density near the nest, (2) size and spacing of trees around nests, and (3) floristic composition of vegetation near nests. I found that nest sites and both categories of random sites had dense and equal amounts of vegetation near ground level (0-20 cm above ground), but that nest sites had more vegetation between 21-40 cm and 61-100 cm above ground than random locations. However, there was no evidence that the structure of the tree community or species composition differed between nest sites and random locations. Towhees thus appear to prefer to place nests in locations with greater vertical cover directly over the nest. Title: Nesting Microhabitat Use by a Ground-nesting Songbird: Strict Preferences or Random Choice? Author: Allen, Jazzmine Year: 2016 Nest site choice of birds has the potential to affect predation rates on nests and reproductive success for many bird species, and is thus tied closely to fitness. Vegetation at a particular site influences concealment (and predation rate as a result). Research has shown that birds of various species base nest site choice on variables like nest height, and especially vegetation cover within the microhabitat around a site. I studied nest site choice in ground-nesting birds, which tend to experience high predation rates near the nest site, and therefore might be expected to be particular choosy about vegetation near the nest. I used Spotted Towhees (Pipilo maculatus) nesting in Lesser Park in Portland, OR, as a model species for ground-nesting birds. I compared Spotted Towhees nest sites (n = 15) to both randomly-chosen sites within 10 m of the nests (n = 15; random territory sites) and other randomly-chosen locations throughout the park (n = 25; random park locations) to test whether vegetation structure and floristic composition differed. I measured (1) vegetation height and density near the nest, (2) size and spacing of trees around nests, and (3) floristic composition of vegetation near nests. I found that nest sites and both categories of random sites had dense and equal amounts of vegetation near ground level (0-20 cm above ground), but that nest sites had more vegetation between 21-40 cm and 61-100 cm above ground than random locations. However, there was no evidence that the structure of the tree community or species composition differed between nest sites and random locations. Towhees thus appear to prefer to place nests in locations with greater vertical cover directly over the nest. Close

• 23. [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

• 24. [Article] The Interplay Between Landscape Structure and Biotic Interactions

  Landscape structure and biotic interactions are closely linked. We identify five aspects of landscape structure that contribute to the co-occurrence of species and restrict or enable different types of ...

  Citation × Citation Citation Abstract Copy Title: The Interplay Between Landscape Structure and Biotic Interactions Author: Zarnetske, Phoebe, Baiser, Benjamin, Strecker, Angela L., Record, Sydne, Belmaker, Jonathan, Tuanmu, Mao-Ning Year: 2017 Landscape structure and biotic interactions are closely linked. We identify five aspects of landscape structure that contribute to the co-occurrence of species and restrict or enable different types of biotic interactions: patch size and habitat amount, isolation of patches, barriers to dispersal and movement, persistence of landscape structure, and landscape complexity. In addition, these aspects of landscape structure influence the strength and outcome of biotic interactions. Whereas most research focuses on the effects of the abiotic environment on species and their biotic interactions, research on foundation species and ecosystem engineers demonstrates the important influence of biotic interactions on landscape structure itself, including effects on landscape complexity, extent of habitat, and the structure of landscape features. In this review, we describe ecological theories that lay the foundation for interplay between landscape structure and biotic interactions, and summarize these connections across an array of interacting species in freshwater, marine, and terrestrial systems. We end with suggestions for integrating the fields of landscape ecology and community ecology to better understand the connections between landscape structure and biotic interactions and better predict their dynamics in light of global change. Title: The Interplay Between Landscape Structure and Biotic Interactions Author: Zarnetske, Phoebe, Baiser, Benjamin, Strecker, Angela L., Record, Sydne, Belmaker, Jonathan, Tuanmu, Mao-Ning Year: 2017 Landscape structure and biotic interactions are closely linked. We identify five aspects of landscape structure that contribute to the co-occurrence of species and restrict or enable different types of biotic interactions: patch size and habitat amount, isolation of patches, barriers to dispersal and movement, persistence of landscape structure, and landscape complexity. In addition, these aspects of landscape structure influence the strength and outcome of biotic interactions. Whereas most research focuses on the effects of the abiotic environment on species and their biotic interactions, research on foundation species and ecosystem engineers demonstrates the important influence of biotic interactions on landscape structure itself, including effects on landscape complexity, extent of habitat, and the structure of landscape features. In this review, we describe ecological theories that lay the foundation for interplay between landscape structure and biotic interactions, and summarize these connections across an array of interacting species in freshwater, marine, and terrestrial systems. We end with suggestions for integrating the fields of landscape ecology and community ecology to better understand the connections between landscape structure and biotic interactions and better predict their dynamics in light of global change. Close

• 25. [Article] Winter Diet of Bobolink, a Long-Distance Migratory Grassland Bird, Inferred from Feather Isotopes

  Effective conservation of migratory bird populations depends on advancements in our understanding of processes throughout the life cycle. Fundamental information about wintering ecology (e.g., habitat ...

  Citation × Citation Citation Abstract Copy Title: Winter Diet of Bobolink, a Long-Distance Migratory Grassland Bird, Inferred from Feather Isotopes Author: Renfrew, Rosalind B., Hill, Jason M., Kim, Daniel H., Romanek, Christopher, Perlut, Noah G. Year: 2017 Effective conservation of migratory bird populations depends on advancements in our understanding of processes throughout the life cycle. Fundamental information about wintering ecology (e.g., habitat use and diet composition) remains limited, which limits assessment of threats to populations during winter. Bobolink (Dolichonyx oryzivorus) is a year-round grassland obligate and Nearctic-Neotropical migrant that undergoes 2 complete molts each year, including a complete prealternate molt on the South American wintering grounds. This unusual winter molt provides a rare opportunity to examine, using stable isotope analysis, the timing and contribution of foraging resources in the Bobolink diet prior to northbound migration from disparate breeding populations. We compared winter diet composition among 3 breeding populations of Bobolinks and during 3 stages of winter molt using stable carbon isotope ratios. We used mixing models to compare the ratio of carbon-12 to carbon-13 isotope (d13C value) in feathers—grown on the wintering grounds but collected from individuals (n ¼ 105) breeding in Vermont, Nebraska, and North Dakota, USA—to estimate diet during early, middle, and late winter molt. Across the 3 breeding populations, Bobolinks relied on C3 sources for nearly one-third of their diet during the winter molt. Isotope data from feathers collected while growing on the wintering grounds from birds in rice vs. non-rice regions supported our assumption that C3 signatures are primarily due to a rice diet. The proportion of rice consumed was highest during late molt, corresponding with a period of greater rice availability to Bobolinks. Our results demonstrate that rice was a substantial component of the diet throughout the winter molt and was most exploited prior to northbound migration. Research is needed on the potential trade-offs of feeding on abundant cultivated rice, including its nutritional value and associated risks and conflicts from foraging in an agricultural setting. Title: Winter Diet of Bobolink, a Long-Distance Migratory Grassland Bird, Inferred from Feather Isotopes Author: Renfrew, Rosalind B., Hill, Jason M., Kim, Daniel H., Romanek, Christopher, Perlut, Noah G. Year: 2017 Effective conservation of migratory bird populations depends on advancements in our understanding of processes throughout the life cycle. Fundamental information about wintering ecology (e.g., habitat use and diet composition) remains limited, which limits assessment of threats to populations during winter. Bobolink (Dolichonyx oryzivorus) is a year-round grassland obligate and Nearctic-Neotropical migrant that undergoes 2 complete molts each year, including a complete prealternate molt on the South American wintering grounds. This unusual winter molt provides a rare opportunity to examine, using stable isotope analysis, the timing and contribution of foraging resources in the Bobolink diet prior to northbound migration from disparate breeding populations. We compared winter diet composition among 3 breeding populations of Bobolinks and during 3 stages of winter molt using stable carbon isotope ratios. We used mixing models to compare the ratio of carbon-12 to carbon-13 isotope (d13C value) in feathers—grown on the wintering grounds but collected from individuals (n ¼ 105) breeding in Vermont, Nebraska, and North Dakota, USA—to estimate diet during early, middle, and late winter molt. Across the 3 breeding populations, Bobolinks relied on C3 sources for nearly one-third of their diet during the winter molt. Isotope data from feathers collected while growing on the wintering grounds from birds in rice vs. non-rice regions supported our assumption that C3 signatures are primarily due to a rice diet. The proportion of rice consumed was highest during late molt, corresponding with a period of greater rice availability to Bobolinks. Our results demonstrate that rice was a substantial component of the diet throughout the winter molt and was most exploited prior to northbound migration. Research is needed on the potential trade-offs of feeding on abundant cultivated rice, including its nutritional value and associated risks and conflicts from foraging in an agricultural setting. Close

• 26. [Article] A multi-gene phylogeny of Cephalopoda supports convergent morphological evolution in association with multiple habitat shifts in the marine environment

  The marine environment is comprised of numerous divergent organisms living under similar selective pressures, often resulting in the evolution of convergent structures such as the fusiform body shape of ...

  Citation × Citation Citation Abstract Copy Title: A multi-gene phylogeny of Cephalopoda supports convergent morphological evolution in association with multiple habitat shifts in the marine environment Author: Lindgren, Annie R., Pankey, Molly S., Hochberg, Frederick G., Oakley, Todd H. Year: 2012 The marine environment is comprised of numerous divergent organisms living under similar selective pressures, often resulting in the evolution of convergent structures such as the fusiform body shape of pelagic squids, fishes, and some marine mammals. However, little is known about the frequency of, and circumstances leading to, convergent evolution in the open ocean. Here, we present a comparative study of the molluscan class Cephalopoda, a marine group known to occupy habitats from the intertidal to the deep sea. Several lineages bear features that may coincide with a benthic or pelagic existence, making this a valuable group for testing hypotheses of correlated evolution. To test for convergence and correlation, we generate the most taxonomically comprehensive multi-gene phylogeny of cephalopods to date. We then create a character matrix of habitat type and morphological characters, which we use to infer ancestral character states and test for correlation between habitat and morphology. Our study utilizes a taxonomically well-sampled phylogeny to show convergent evolution in all six morphological characters we analyzed. Three of these characters also correlate with habitat. The presence of an autogenic photophore (those relying upon autonomous enzymatic light reactions) is correlated with a pelagic habitat, while the cornea and accessory nidamental gland correlate with a benthic lifestyle. Here, we present the first statistical tests for correlation between convergent traits and habitat in cephalopods to better understand the evolutionary history of characters that are adaptive in benthic or pelagic environments, respectively. Our study supports the hypothesis that habitat has influenced convergent evolution in the marine environment: benthic organisms tend to exhibit similar characteristics that confer protection from invasion by other benthic taxa, while pelagic organisms possess features that facilitate crypsis and communication in an environment lacking physical refuges. Features that have originated multiple times in distantly related lineages are likely adaptive for the organisms inhabiting a particular environment: studying the frequency and evolutionary history of such convergent characters can increase understanding of the underlying forces driving ecological and evolutionary transitions in the marine environment. Title: A multi-gene phylogeny of Cephalopoda supports convergent morphological evolution in association with multiple habitat shifts in the marine environment Author: Lindgren, Annie R., Pankey, Molly S., Hochberg, Frederick G., Oakley, Todd H. Year: 2012 The marine environment is comprised of numerous divergent organisms living under similar selective pressures, often resulting in the evolution of convergent structures such as the fusiform body shape of pelagic squids, fishes, and some marine mammals. However, little is known about the frequency of, and circumstances leading to, convergent evolution in the open ocean. Here, we present a comparative study of the molluscan class Cephalopoda, a marine group known to occupy habitats from the intertidal to the deep sea. Several lineages bear features that may coincide with a benthic or pelagic existence, making this a valuable group for testing hypotheses of correlated evolution. To test for convergence and correlation, we generate the most taxonomically comprehensive multi-gene phylogeny of cephalopods to date. We then create a character matrix of habitat type and morphological characters, which we use to infer ancestral character states and test for correlation between habitat and morphology. Our study utilizes a taxonomically well-sampled phylogeny to show convergent evolution in all six morphological characters we analyzed. Three of these characters also correlate with habitat. The presence of an autogenic photophore (those relying upon autonomous enzymatic light reactions) is correlated with a pelagic habitat, while the cornea and accessory nidamental gland correlate with a benthic lifestyle. Here, we present the first statistical tests for correlation between convergent traits and habitat in cephalopods to better understand the evolutionary history of characters that are adaptive in benthic or pelagic environments, respectively. Our study supports the hypothesis that habitat has influenced convergent evolution in the marine environment: benthic organisms tend to exhibit similar characteristics that confer protection from invasion by other benthic taxa, while pelagic organisms possess features that facilitate crypsis and communication in an environment lacking physical refuges. Features that have originated multiple times in distantly related lineages are likely adaptive for the organisms inhabiting a particular environment: studying the frequency and evolutionary history of such convergent characters can increase understanding of the underlying forces driving ecological and evolutionary transitions in the marine environment. Close

• 27. [Article] The Hyperthermophilic Archaeon Sulfolobus : from Exploration to Exploitation

  In the early 1970s, Sulfolobus was first isolated by Thomas Brock and co-workers from sulfur-rich acidic hot springs in Yellowstone National Park. Sulfolobus became one of the model organisms of Archaea ...

  Citation × Citation Citation Abstract Copy Title: The Hyperthermophilic Archaeon Sulfolobus : from Exploration to Exploitation Author: Brouns, Stan J.J., Ettema, Thijs J.G., Stedman, Kenneth M., Walther, Jasper, Smith, Hauke, Snijders, Ambrosius P.L., Young, Mark, Bernander, Rolf, Wright, Phillip C., Siebers, Betina, Van der Oost, John Year: 2003 In the early 1970s, Sulfolobus was first isolated by Thomas Brock and co-workers from sulfur-rich acidic hot springs in Yellowstone National Park. Sulfolobus became one of the model organisms of Archaea in general, and of Crenarchaea in particular. Many of its unusual physiological characteristics have been investigated, and several of its thermostable enzymes have been studied in considerable detail. For fundamental reasons, and because of its potential for industrial applications, Sulfolobus has been selected for a genome sequence project. The recent completion of the Sulfolobus solfataricus genome has set the stage for a series of postgenome research lines that will be reviewed here. Comparative genomics aims to unravel the cell’s metabolic potential (enzymes, pathways, and regulation) and compare it to other organisms. This in silico analysis of Sulfolobus has revealed several unique metabolic features and confirmed that the major control processes (transcription, translation, and replication) resemble eukaryal much more than bacterial equivalents. Currently, several research groups use a functional genomics approach—a genomebased, high-throughput analysis of the complete Sulfolobus cell—at the level of RNA (transcriptomics), protein (proteomics), and metabolic intermediates and products (metabolomics). Apart from analyzing the cell’s response to different cultivation conditions, the comparison of different genotypes (wild type and mutants) would be very interesting for both basic science and applied reasons. Much effort has recently been put into the establishment of tools that allow genetic engineering of Sulfolobus. The future challenge is to integrate available knowledge in order to understand the relevant mechanisms that enable Sulfolobus to thrive in its extreme habitats. Moreover, such a Systems Biology approach is essential as a basis for the directed engineering and industrial exploitation of this unique microorganism. Title: The Hyperthermophilic Archaeon Sulfolobus : from Exploration to Exploitation Author: Brouns, Stan J.J., Ettema, Thijs J.G., Stedman, Kenneth M., Walther, Jasper, Smith, Hauke, Snijders, Ambrosius P.L., Young, Mark, Bernander, Rolf, Wright, Phillip C., Siebers, Betina, Van der Oost, John Year: 2003 In the early 1970s, Sulfolobus was first isolated by Thomas Brock and co-workers from sulfur-rich acidic hot springs in Yellowstone National Park. Sulfolobus became one of the model organisms of Archaea in general, and of Crenarchaea in particular. Many of its unusual physiological characteristics have been investigated, and several of its thermostable enzymes have been studied in considerable detail. For fundamental reasons, and because of its potential for industrial applications, Sulfolobus has been selected for a genome sequence project. The recent completion of the Sulfolobus solfataricus genome has set the stage for a series of postgenome research lines that will be reviewed here. Comparative genomics aims to unravel the cell’s metabolic potential (enzymes, pathways, and regulation) and compare it to other organisms. This in silico analysis of Sulfolobus has revealed several unique metabolic features and confirmed that the major control processes (transcription, translation, and replication) resemble eukaryal much more than bacterial equivalents. Currently, several research groups use a functional genomics approach—a genomebased, high-throughput analysis of the complete Sulfolobus cell—at the level of RNA (transcriptomics), protein (proteomics), and metabolic intermediates and products (metabolomics). Apart from analyzing the cell’s response to different cultivation conditions, the comparison of different genotypes (wild type and mutants) would be very interesting for both basic science and applied reasons. Much effort has recently been put into the establishment of tools that allow genetic engineering of Sulfolobus. The future challenge is to integrate available knowledge in order to understand the relevant mechanisms that enable Sulfolobus to thrive in its extreme habitats. Moreover, such a Systems Biology approach is essential as a basis for the directed engineering and industrial exploitation of this unique microorganism. Close

• 28. [Article] Metagenomes from High-Temperature Chemotrophic Systems Reveal Geochemical Controls on Microbial Community Structure and Function

  The Yellowstone caldera contains the most numerous and diverse geothermal systems on Earth, yielding an extensive array of unique high-temperature environments that host a variety of deeply-rooted and ...

  Citation × Citation Citation Abstract Copy Title: Metagenomes from High-Temperature Chemotrophic Systems Reveal Geochemical Controls on Microbial Community Structure and Function Author: Inskeep, William P., Rusch, Douglas B., Jay, Zackary J., Herrgard, Markus J., Kozubal, Mark A., Richardson, Toby H., Macur, Richard E., Hamamura, Natsuko, Jennings, Ryan deM., Fouke, Bruce W., Reysenbach, Anna-Louise, Roberto, Frank, Young, Mark, Schwartz, Ariel, Boyd, Eric S., Badger, Jonathan H., Mathur, Eric J., Ortmann, Alice C., Bateson, Mary, Geesey, Gill Year: 2010 The Yellowstone caldera contains the most numerous and diverse geothermal systems on Earth, yielding an extensive array of unique high-temperature environments that host a variety of deeply-rooted and understudied Archaea, Bacteria and Eukarya. The combination of extreme temperature and chemical conditions encountered in geothermal environments often results in considerably less microbial diversity than other terrestrial habitats and offers a tremendous opportunity for studying the structure and function of indigenous microbial communities and for establishing linkages between putative metabolisms and element cycling. Metagenome sequence (14-15,000 Sanger reads per site) was obtained for five hightemperature (>65°C) chemotrophic microbial communities sampled from geothermal springs (or pools) in Yellowstone National Park (YNP) that exhibit a wide range in geochemistry including pH, dissolved sulfide, dissolved oxygen and ferrous iron. Metagenome data revealed significant differences in the predominant phyla associated with each of these geochemical environments. Novel members of the Sulfolobales are dominant in low pH environments, while other Crenarchaeota including distantly-related Thermoproteales and Desulfurococcales populations dominate in suboxic sulfidic sediments. Several novel archaeal groups are well represented in an acidic (pH 3) Fe-oxyhydroxide mat, where a higher O2 influx is accompanied with an increase in archaeal diversity. The presence or absence of genes and pathways important in S oxidation-reduction, H2-oxidation, and aerobic respiration (terminal oxidation) provide insight regarding the metabolic strategies of indigenous organisms present in geothermal systems. Multiple-pathway and protein-specific functional analysis of metagenome sequence data corroborated results from phylogenetic analyses and clearly demonstrate major differences in metabolic potential across sites. The distribution of functional genes involved in electron transport is consistent with the hypothesis that geochemical parameters (e.g., pH, sulfide, Fe, O2) control microbial community structure and function in YNP geothermal springs. Title: Metagenomes from High-Temperature Chemotrophic Systems Reveal Geochemical Controls on Microbial Community Structure and Function Author: Inskeep, William P., Rusch, Douglas B., Jay, Zackary J., Herrgard, Markus J., Kozubal, Mark A., Richardson, Toby H., Macur, Richard E., Hamamura, Natsuko, Jennings, Ryan deM., Fouke, Bruce W., Reysenbach, Anna-Louise, Roberto, Frank, Young, Mark, Schwartz, Ariel, Boyd, Eric S., Badger, Jonathan H., Mathur, Eric J., Ortmann, Alice C., Bateson, Mary, Geesey, Gill Year: 2010 The Yellowstone caldera contains the most numerous and diverse geothermal systems on Earth, yielding an extensive array of unique high-temperature environments that host a variety of deeply-rooted and understudied Archaea, Bacteria and Eukarya. The combination of extreme temperature and chemical conditions encountered in geothermal environments often results in considerably less microbial diversity than other terrestrial habitats and offers a tremendous opportunity for studying the structure and function of indigenous microbial communities and for establishing linkages between putative metabolisms and element cycling. Metagenome sequence (14-15,000 Sanger reads per site) was obtained for five hightemperature (>65°C) chemotrophic microbial communities sampled from geothermal springs (or pools) in Yellowstone National Park (YNP) that exhibit a wide range in geochemistry including pH, dissolved sulfide, dissolved oxygen and ferrous iron. Metagenome data revealed significant differences in the predominant phyla associated with each of these geochemical environments. Novel members of the Sulfolobales are dominant in low pH environments, while other Crenarchaeota including distantly-related Thermoproteales and Desulfurococcales populations dominate in suboxic sulfidic sediments. Several novel archaeal groups are well represented in an acidic (pH 3) Fe-oxyhydroxide mat, where a higher O2 influx is accompanied with an increase in archaeal diversity. The presence or absence of genes and pathways important in S oxidation-reduction, H2-oxidation, and aerobic respiration (terminal oxidation) provide insight regarding the metabolic strategies of indigenous organisms present in geothermal systems. Multiple-pathway and protein-specific functional analysis of metagenome sequence data corroborated results from phylogenetic analyses and clearly demonstrate major differences in metabolic potential across sites. The distribution of functional genes involved in electron transport is consistent with the hypothesis that geochemical parameters (e.g., pH, sulfide, Fe, O2) control microbial community structure and function in YNP geothermal springs. Close

• 29. [Article] Consequences of Mycorrhizal Colonization for Piriqueta Morphotypes under Drought Stress

  Field and greenhouse studies have shown that arbuscular mycorrhizal fungi (AMF) can improve plant growth in environments with restricted water availability. The benefits of AMF symbiosis vary among plant ...

  Citation × Citation Citation Abstract Copy Title: Consequences of Mycorrhizal Colonization for Piriqueta Morphotypes under Drought Stress Author: Sochacki, Paul, Rhode Ward, Jennifer, Cruzan, Mitchell B. Year: 2013 Field and greenhouse studies have shown that arbuscular mycorrhizal fungi (AMF) can improve plant growth in environments with restricted water availability. The benefits of AMF symbiosis vary among plant species, but the extent to which AMF-mediated drought tolerance varies among subspecific taxa remains poorly understood. In this study, we examine differences in AMF response among three recently diverged, ecologically heterogeneous plant taxa (morphotypes) within the Piriqueta cistoides spp. caroliniana complex. We performed a greenhouse experiment using cuttings of each morphotype inoculated in field-collected soil to test for inoculum source effects of AMF on plant growth under drought. Correlation between AMF colonization and plant performance under drought was significant for all three morphotypes but was strongest for viridis morphotype; this group is associated with mesic, low-phosphorous soils of south Florida slash pine flatwoods. Compared to inocula obtained from other morphotypes’ regions, the AMF obtained from one of the most arid habitats (caroliniana) promoted an equal or greater amount of growth in host plants despite relatively low levels of root colonization. These findings suggest that both genetic divergence among morphotypes and the source of AMF inoculum affect plant growth under drought in P. c. ssp. caroliniana complex. Title: Consequences of Mycorrhizal Colonization for Piriqueta Morphotypes under Drought Stress Author: Sochacki, Paul, Rhode Ward, Jennifer, Cruzan, Mitchell B. Year: 2013 Field and greenhouse studies have shown that arbuscular mycorrhizal fungi (AMF) can improve plant growth in environments with restricted water availability. The benefits of AMF symbiosis vary among plant species, but the extent to which AMF-mediated drought tolerance varies among subspecific taxa remains poorly understood. In this study, we examine differences in AMF response among three recently diverged, ecologically heterogeneous plant taxa (morphotypes) within the Piriqueta cistoides spp. caroliniana complex. We performed a greenhouse experiment using cuttings of each morphotype inoculated in field-collected soil to test for inoculum source effects of AMF on plant growth under drought. Correlation between AMF colonization and plant performance under drought was significant for all three morphotypes but was strongest for viridis morphotype; this group is associated with mesic, low-phosphorous soils of south Florida slash pine flatwoods. Compared to inocula obtained from other morphotypes’ regions, the AMF obtained from one of the most arid habitats (caroliniana) promoted an equal or greater amount of growth in host plants despite relatively low levels of root colonization. These findings suggest that both genetic divergence among morphotypes and the source of AMF inoculum affect plant growth under drought in P. c. ssp. caroliniana complex. Close

• 30. [Article] Residential Edges as Ecological Traps: Postfledgling Survival of a Ground-Nesting Passerine in a Forested Urban Park

  Substantial offspring mortality can occur during the postfledging period of birds, but few postfledging survival studies have been conducted within the context of habitat suitability. We conducted a 2-year ...

  Citation × Citation Citation Abstract Copy Title: Residential Edges as Ecological Traps: Postfledgling Survival of a Ground-Nesting Passerine in a Forested Urban Park Author: Shipley, Amy A., Murphy, Michael T., Elzinga, Adam H. Year: 2013 Substantial offspring mortality can occur during the postfledging period of birds, but few postfledging survival studies have been conducted within the context of habitat suitability. We conducted a 2-year radiotelemetry study of Spotted Towhee (Pipilo maculatus) reproductive success and fledgling survival in a 24-ha forested park in a residential area of Lake Oswego, Oregon. In corroboration of previous research on this species, we found (1) that Spotted Towhees nested closer to the edge between the park and residential neighborhoods than expected by chance, and (2) that pairs nesting near edges produced the largest and most offspring. However, fates were reversed during the postfledging period. Thirty-six of 52 fledglings survived the 27-day tracking period, and although fledglings were more likely to be found near edges than in the interior, fledglings near edges had a far higher probability of dying. All deaths were from predation, and at least 11 of 16 predation events were attributable to Domestic Cats (Felis catus) and Western Screech-Owls (Megascops kennicottii). A stochastic model that incorporated probability of nest success, nestling production from successful nests, and fledgling survival showed that the number of independent offspring produced per nest was greatest in the park interior. Heavy use of, and apparent preference for, edge by nesting Spotted Towhees, coupled with high fledgling mortality near edges, created a severe ecological trap that was not apparent until the final stage of parental care. Hence, failure to document offspring survival in the late stages of reproduction may lead to incorrect assessment of habitat suitability and poor management decisions. Title: Residential Edges as Ecological Traps: Postfledgling Survival of a Ground-Nesting Passerine in a Forested Urban Park Author: Shipley, Amy A., Murphy, Michael T., Elzinga, Adam H. Year: 2013 Substantial offspring mortality can occur during the postfledging period of birds, but few postfledging survival studies have been conducted within the context of habitat suitability. We conducted a 2-year radiotelemetry study of Spotted Towhee (Pipilo maculatus) reproductive success and fledgling survival in a 24-ha forested park in a residential area of Lake Oswego, Oregon. In corroboration of previous research on this species, we found (1) that Spotted Towhees nested closer to the edge between the park and residential neighborhoods than expected by chance, and (2) that pairs nesting near edges produced the largest and most offspring. However, fates were reversed during the postfledging period. Thirty-six of 52 fledglings survived the 27-day tracking period, and although fledglings were more likely to be found near edges than in the interior, fledglings near edges had a far higher probability of dying. All deaths were from predation, and at least 11 of 16 predation events were attributable to Domestic Cats (Felis catus) and Western Screech-Owls (Megascops kennicottii). A stochastic model that incorporated probability of nest success, nestling production from successful nests, and fledgling survival showed that the number of independent offspring produced per nest was greatest in the park interior. Heavy use of, and apparent preference for, edge by nesting Spotted Towhees, coupled with high fledgling mortality near edges, created a severe ecological trap that was not apparent until the final stage of parental care. Hence, failure to document offspring survival in the late stages of reproduction may lead to incorrect assessment of habitat suitability and poor management decisions. Close

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

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

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

• 32. [Article] 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

• 33. [Article] A Comparison of Five Models for Estimating Clear-Sky Solar Radiation

  Many agencies in the USA are developing management approaches to address water quality concerns and threatened and endangered species habitat requirements in water bodies. Many of these water bodies are ...

  Citation × Citation Citation Abstract Copy Title: A Comparison of Five Models for Estimating Clear-Sky Solar Radiation Author: Annear, Robert Leslie, Wells, Scott A. Year: 2007 Many agencies in the USA are developing management approaches to address water quality concerns and threatened and endangered species habitat requirements in water bodies. Many of these water bodies are water quality limited for temperature. Factors influencing stream temperature include: streamside vegetation, topographic shading, inflows and outflows, stream width, stream depth, light extinction and solar radiation. One of the key driving factors in estimating a water body heat budget is calculating the amount of solar radiation incident on the water surface. Even though it is preferable to measure clear-sky solar radiation, many temperature models rely on theoretical estimates of clear-sky solar radiation. The literature on estimating short-wave solar radiation by calculating the position of the sun and attenuating the radiation through the atmosphere was reviewed. As a first step in relating water temperature to solar radiation, several empirical solar radiation models were calibrated to data at seventeen sites around the United States for clear-sky days. Sensitivity analyses were conducted and differences between the models were examined. Results indicated that the more complex models for calculating solar radiation resulted in better estimates of clear-sky solar radiation once they were calibrated to data. When no data were available, models with one or no calibration parameters did reasonably well at estimating clear-sky solar radiation. Title: A Comparison of Five Models for Estimating Clear-Sky Solar Radiation Author: Annear, Robert Leslie, Wells, Scott A. Year: 2007 Many agencies in the USA are developing management approaches to address water quality concerns and threatened and endangered species habitat requirements in water bodies. Many of these water bodies are water quality limited for temperature. Factors influencing stream temperature include: streamside vegetation, topographic shading, inflows and outflows, stream width, stream depth, light extinction and solar radiation. One of the key driving factors in estimating a water body heat budget is calculating the amount of solar radiation incident on the water surface. Even though it is preferable to measure clear-sky solar radiation, many temperature models rely on theoretical estimates of clear-sky solar radiation. The literature on estimating short-wave solar radiation by calculating the position of the sun and attenuating the radiation through the atmosphere was reviewed. As a first step in relating water temperature to solar radiation, several empirical solar radiation models were calibrated to data at seventeen sites around the United States for clear-sky days. Sensitivity analyses were conducted and differences between the models were examined. Results indicated that the more complex models for calculating solar radiation resulted in better estimates of clear-sky solar radiation once they were calibrated to data. When no data were available, models with one or no calibration parameters did reasonably well at estimating clear-sky solar radiation. Close

• 34. [Article] Impacts of Columbia River Discharge on Salmonid Habitat: 1. A Nonstationary Fluvial Tide Model

  This is the first part of a two-part investigation that applies nonstationary time series analysis methods and the St. Venant equations to the problem of understanding juvenile salmonid access to favorable ...

  Citation × Citation Citation Abstract Copy Title: Impacts of Columbia River Discharge on Salmonid Habitat: 1. A Nonstationary Fluvial Tide Model Author: Jay, David A., Kukulka, Tobias Year: 2003 This is the first part of a two-part investigation that applies nonstationary time series analysis methods and the St. Venant equations to the problem of understanding juvenile salmonid access to favorable shallow-water habitat in a tidal river. Habitat access is a function of river stage, tidal range, and the distribution of bed elevation. Part 1 models nonstationary tidal properties: species amplitudes and phases and tidal range. Part 2 models low-frequency river stage in the Lower Columbia River and reconstructs historical water levels, using the tidal model from part 1. To incorporate the nonstationary frictional effects of variable river discharge into the tidal model, we decompose the tidal wave into tidal species and calculate daily tidal range. Our one-dimensional tidal model is based on analytic wave solutions to the linearized St. Venant equation and uses six coefficients per tidal species to represent the upstream evolution of the frictionally damped tidal wave. The form of the coefficients is derived from the St. Venant equations, but their values are determined objectively from the data. About 50 station-years of surface elevation data collected (1981-2000) below Bonneville Dam (235 km from the ocean) were processed with a wavelet filter bank to retrieve time series of tidal species properties. A min-max filter was used to estimate daily tidal range. Tidal range, diurnal, and semidiurnal amplitudes were predicted with mean root mean square errorsmm, which is significantly more accurate than predictions obtained from harmonic analysis. Thus despite the compact form of our solution, we model nonstationary fluvial tidal properties with a high level of accuracy. Title: Impacts of Columbia River Discharge on Salmonid Habitat: 1. A Nonstationary Fluvial Tide Model Author: Jay, David A., Kukulka, Tobias Year: 2003 This is the first part of a two-part investigation that applies nonstationary time series analysis methods and the St. Venant equations to the problem of understanding juvenile salmonid access to favorable shallow-water habitat in a tidal river. Habitat access is a function of river stage, tidal range, and the distribution of bed elevation. Part 1 models nonstationary tidal properties: species amplitudes and phases and tidal range. Part 2 models low-frequency river stage in the Lower Columbia River and reconstructs historical water levels, using the tidal model from part 1. To incorporate the nonstationary frictional effects of variable river discharge into the tidal model, we decompose the tidal wave into tidal species and calculate daily tidal range. Our one-dimensional tidal model is based on analytic wave solutions to the linearized St. Venant equation and uses six coefficients per tidal species to represent the upstream evolution of the frictionally damped tidal wave. The form of the coefficients is derived from the St. Venant equations, but their values are determined objectively from the data. About 50 station-years of surface elevation data collected (1981-2000) below Bonneville Dam (235 km from the ocean) were processed with a wavelet filter bank to retrieve time series of tidal species properties. A min-max filter was used to estimate daily tidal range. Tidal range, diurnal, and semidiurnal amplitudes were predicted with mean root mean square errorsmm, which is significantly more accurate than predictions obtained from harmonic analysis. Thus despite the compact form of our solution, we model nonstationary fluvial tidal properties with a high level of accuracy. Close

• 35. [Article] Impacts of Columbia River Discharge on Salmonid Habitat: 2. Changes in Shallow-Water Habitat

  This is the second part of an investigation that analyzes human alteration of shallow-water habitat (SWH) available to juvenile salmonids in the tidal Lower Columbia River. Part 2 develops a one-dimensional, ...

  Citation × Citation Citation Abstract Copy Title: Impacts of Columbia River Discharge on Salmonid Habitat: 2. Changes in Shallow-Water Habitat Author: Jay, David A., Kukulka, Tobias Year: 2003 This is the second part of an investigation that analyzes human alteration of shallow-water habitat (SWH) available to juvenile salmonids in the tidal Lower Columbia River. Part 2 develops a one-dimensional, subtidal river stage model that explains ~90% of the stage variance in the tidal river. This model and the tidal model developed in part 1 (Kukulka and Jay, 2003) uncouple the nonlinear interaction of river tides and river stage by referring both to external forcing by river discharge, ocean tides, and atmospheric pressure. Applying the two models, daily high-water levels were predicted for a reach from rkm-50 to rkm-90 during 1974 to 1998, the period of contemporary management. Predicted water levels were related to the bathymetry and topography to determine the changes in shallow-water habitat area (SWHA) caused by flood control dikes and altered flow management. Model results suggest that diking and a >40% reduction of peak flows have reduced SWHA by ~62% during the crucial spring freshet period during which juvenile salmon use of SWHA is maximal. Taken individually, diking and flow cycle alteration reduced spring freshet SWHA by 52% and 29%, respectively. SWHA has been both displaced to lower elevations and modified in its character because tidal range has increased. Our models of these processes are economical for the very long simulations (seasons to centuries) needed to understand historic changes and climate impacts on SWH. Through analysis of the nonlinear processes controlling surface elevation in a tidal river, we have identified some of the mechanisms that link freshwater discharge to SWH and salmonid survival. Title: Impacts of Columbia River Discharge on Salmonid Habitat: 2. Changes in Shallow-Water Habitat Author: Jay, David A., Kukulka, Tobias Year: 2003 This is the second part of an investigation that analyzes human alteration of shallow-water habitat (SWH) available to juvenile salmonids in the tidal Lower Columbia River. Part 2 develops a one-dimensional, subtidal river stage model that explains ~90% of the stage variance in the tidal river. This model and the tidal model developed in part 1 (Kukulka and Jay, 2003) uncouple the nonlinear interaction of river tides and river stage by referring both to external forcing by river discharge, ocean tides, and atmospheric pressure. Applying the two models, daily high-water levels were predicted for a reach from rkm-50 to rkm-90 during 1974 to 1998, the period of contemporary management. Predicted water levels were related to the bathymetry and topography to determine the changes in shallow-water habitat area (SWHA) caused by flood control dikes and altered flow management. Model results suggest that diking and a >40% reduction of peak flows have reduced SWHA by ~62% during the crucial spring freshet period during which juvenile salmon use of SWHA is maximal. Taken individually, diking and flow cycle alteration reduced spring freshet SWHA by 52% and 29%, respectively. SWHA has been both displaced to lower elevations and modified in its character because tidal range has increased. Our models of these processes are economical for the very long simulations (seasons to centuries) needed to understand historic changes and climate impacts on SWH. Through analysis of the nonlinear processes controlling surface elevation in a tidal river, we have identified some of the mechanisms that link freshwater discharge to SWH and salmonid survival. Close

• 36. [Article] Factors for Improved Fish Passage Waterway Construction

  Streambeds are important fish passageways in Oregon; they provide for the necessary habitats and spawning cycles of a healthy fish population. Oregon state law requires that hydraulic structures located ...

  Citation × Citation Citation Abstract Copy Title: Factors for Improved Fish Passage Waterway Construction Author: Sillars, David N., Moradkhani, Hamid, Tymvios, Nicholas, Smith, Trevor D. Year: 2011 Streambeds are important fish passageways in Oregon; they provide for the necessary habitats and spawning cycles of a healthy fish population. Oregon state law requires that hydraulic structures located in water properly provide fish passage. Increasingly stringent state and federal regulations apply to these fish passageways, and designers must become more cognizant of conditions over a range of flows to accommodate fish movement and avoid expensive structural failure of these passageways. Fish passage structures are built when roads cross streambeds and may include culverts, or bridges. When these structures are built, the streambeds are re-created using a technique called “roughened channels”. Roughened channels are man-made stream channels utilized for re-creating the hydraulics necessary for adequate stream passage, and this may include new constructions or retrofits of older, inadequate structures. Mixtures of materials are used to construct the bed of roughened channels, ranging from fines such as sand, silt and gravel to coarse elements like cobbles and boulders. Fines are a critical element in limiting permeability of the constructed bed thus keeping stream flow at the surface of the roughened channel during low flow periods. This report discusses work of a research project designed to discover factors that are key to successful long-term implementation of fish passageways, especially focused on the construction process. Areas of inquiry postulated in this study are that failures experienced in actual installations may be due to inadequate range and/or mix of soil and rock material gradation; unexpected water velocity, especially during high flows; inadequate mixing of rock and soil materials during construction; and inadequate compaction of rock and soil materials during construction. This report suggests that several factors may be especially important considerations in fish passage success. These factors are the relationship of downstream slope to structure slope, well-graded fine soil materials in the channel fill (improved by choice of fill source), and frequent site visits. Improving fish passages for cost-efficient fish movement is a priority for government agencies such as Oregon Department of Transportation (ODOT) and Oregon Transportation Research and Education Consortium (OTREC). Title: Factors for Improved Fish Passage Waterway Construction Author: Sillars, David N., Moradkhani, Hamid, Tymvios, Nicholas, Smith, Trevor D. Year: 2011 Streambeds are important fish passageways in Oregon; they provide for the necessary habitats and spawning cycles of a healthy fish population. Oregon state law requires that hydraulic structures located in water properly provide fish passage. Increasingly stringent state and federal regulations apply to these fish passageways, and designers must become more cognizant of conditions over a range of flows to accommodate fish movement and avoid expensive structural failure of these passageways. Fish passage structures are built when roads cross streambeds and may include culverts, or bridges. When these structures are built, the streambeds are re-created using a technique called “roughened channels”. Roughened channels are man-made stream channels utilized for re-creating the hydraulics necessary for adequate stream passage, and this may include new constructions or retrofits of older, inadequate structures. Mixtures of materials are used to construct the bed of roughened channels, ranging from fines such as sand, silt and gravel to coarse elements like cobbles and boulders. Fines are a critical element in limiting permeability of the constructed bed thus keeping stream flow at the surface of the roughened channel during low flow periods. This report discusses work of a research project designed to discover factors that are key to successful long-term implementation of fish passageways, especially focused on the construction process. Areas of inquiry postulated in this study are that failures experienced in actual installations may be due to inadequate range and/or mix of soil and rock material gradation; unexpected water velocity, especially during high flows; inadequate mixing of rock and soil materials during construction; and inadequate compaction of rock and soil materials during construction. This report suggests that several factors may be especially important considerations in fish passage success. These factors are the relationship of downstream slope to structure slope, well-graded fine soil materials in the channel fill (improved by choice of fill source), and frequent site visits. Improving fish passages for cost-efficient fish movement is a priority for government agencies such as Oregon Department of Transportation (ODOT) and Oregon Transportation Research and Education Consortium (OTREC). Close

• 37. [Article] Road Ecology Course and Seminar Series

  The American road network is a major economic investment that is a major organizing force for human activity. The road system has profoundly altered ecological processes and, as a result, it is also an ...

  Citation × Citation Citation Abstract Copy Title: Road Ecology Course and Seminar Series Author: Sytsma, Mark D. Year: 2008 The American road network is a major economic investment that is a major organizing force for human activity. The road system has profoundly altered ecological processes and, as a result, it is also an important organizing force for ecosystems. Understanding the ecological consequences of road system design and use is critical to effective engineering and management of road systems to minimize impacts. I propose a new course within Environmental Science and Resources at PSU that will expose upper division undergraduate and graduate students to the fundamental concepts of road ecology through discussion, guest speakers, and field trips. I propose a student-led discussion course focusing on the book Road Ecology, edited by Forman et al. This book provides an introduction to the basic concepts underlying road impacts on the environment. Students will be required to read the book; discussion of each chapter will be led by a student who will make a presentation on results of a search of the primary literature on the subject of each chapter. The classroom discussion will be supplemented with guest speakers that will bring real- world examples to the classroom. Potential topics for guest speakers include: impacts of highway runoff and roadside spraying on water quality, impacts of roads on erosional processes, impacts of culverts on anadromous fish passage, mitigation of habitat fragmentation and road impacts on animal movements, and role of maintenance activities in facilitating weed invasions. Invited speakers will also be requested to provide a departmental seminar to communicate road ecology principles to a wider audience of undergraduate and graduate students in Environmental Science and Resources. Field trips to observe road impacts and mitigation measures will add to students understanding of road ecology. We will schedule field trips to observe impacts as well as efforts to mitigate environmental effects of roads. Students performance will be evaluated by participation in class discussions and field trips, and a term paper. Undergraduates will be required to write a literature review on an aspect of road ecology of their choosing. Graduate students will be required to write a proposal to investigate some aspect of road ecology. Following completion of the course students will have a broad understanding of the environmental impacts of road systems on ecological processes and methods of mitigating impacts. Graduate students will have a research proposal that may be appropriate for submittal to OTREC for funding. Title: Road Ecology Course and Seminar Series Author: Sytsma, Mark D. Year: 2008 The American road network is a major economic investment that is a major organizing force for human activity. The road system has profoundly altered ecological processes and, as a result, it is also an important organizing force for ecosystems. Understanding the ecological consequences of road system design and use is critical to effective engineering and management of road systems to minimize impacts. I propose a new course within Environmental Science and Resources at PSU that will expose upper division undergraduate and graduate students to the fundamental concepts of road ecology through discussion, guest speakers, and field trips. I propose a student-led discussion course focusing on the book Road Ecology, edited by Forman et al. This book provides an introduction to the basic concepts underlying road impacts on the environment. Students will be required to read the book; discussion of each chapter will be led by a student who will make a presentation on results of a search of the primary literature on the subject of each chapter. The classroom discussion will be supplemented with guest speakers that will bring real- world examples to the classroom. Potential topics for guest speakers include: impacts of highway runoff and roadside spraying on water quality, impacts of roads on erosional processes, impacts of culverts on anadromous fish passage, mitigation of habitat fragmentation and road impacts on animal movements, and role of maintenance activities in facilitating weed invasions. Invited speakers will also be requested to provide a departmental seminar to communicate road ecology principles to a wider audience of undergraduate and graduate students in Environmental Science and Resources. Field trips to observe road impacts and mitigation measures will add to students understanding of road ecology. We will schedule field trips to observe impacts as well as efforts to mitigate environmental effects of roads. Students performance will be evaluated by participation in class discussions and field trips, and a term paper. Undergraduates will be required to write a literature review on an aspect of road ecology of their choosing. Graduate students will be required to write a proposal to investigate some aspect of road ecology. Following completion of the course students will have a broad understanding of the environmental impacts of road systems on ecological processes and methods of mitigating impacts. Graduate students will have a research proposal that may be appropriate for submittal to OTREC for funding. Close

• 38. [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

• 39. [Article] Archaeological Evidence for Resilience of Pacific Northwest Salmon Populations and the Socioecological System Over the Last ~7,500 Years

  Archaeological data on the long history of interaction between indigenous people and salmon have rarely been applied to conservation management. When joined with ethnohistoric records, archaeology provides ...

  Citation × Citation Citation Abstract Copy Title: Archaeological Evidence for Resilience of Pacific Northwest Salmon Populations and the Socioecological System Over the Last ~7,500 Years Author: Campbell, Sarah K., Butler, Virginia L. Year: 2010 Archaeological data on the long history of interaction between indigenous people and salmon have rarely been applied to conservation management. When joined with ethnohistoric records, archaeology provides an alternative conceptual view of the potential for sustainable harvests and can suggest possible social mechanisms for managing human behavior. Review of the ~7,500-year-long fish bone record from two subregions of the Pacific Northwest shows remarkable stability in salmon use. As major changes in the ecological and social system occurred over this lengthy period, persistence in the fishery is not due simply to a lack of perturbation, but rather indicates resilience in the ecological--human system. Of several factors possibly contributing to resilience, low human population size and harvesting pressure, habitat enhancement, and suppression of competing predators do not appear to be of major importance. Flexible resource use, including human use of a range of local resources, many of which are linked in a food web with salmon, likely contributed to resilience. Most important were the beliefs and social institutions (including ownership, regulation, rituals, and monitoring) that placed restraints on salmon use as a common pool resource. In contrast, only a small fraction of our modern society relies economically on or has direct interaction with the fish, which limits our concern and willingness to fundamentally change behaviors that contribute to habitat degradation and loss, the main challenges facing salmon populations today. Salmon recovery efforts may benefit substantially from investing more resources into establishing links between community groups and actual fish populations, which would create a sense of proprietorship, one of the keys to resilience in the indigenous salmon fishery. Title: Archaeological Evidence for Resilience of Pacific Northwest Salmon Populations and the Socioecological System Over the Last ~7,500 Years Author: Campbell, Sarah K., Butler, Virginia L. Year: 2010 Archaeological data on the long history of interaction between indigenous people and salmon have rarely been applied to conservation management. When joined with ethnohistoric records, archaeology provides an alternative conceptual view of the potential for sustainable harvests and can suggest possible social mechanisms for managing human behavior. Review of the ~7,500-year-long fish bone record from two subregions of the Pacific Northwest shows remarkable stability in salmon use. As major changes in the ecological and social system occurred over this lengthy period, persistence in the fishery is not due simply to a lack of perturbation, but rather indicates resilience in the ecological--human system. Of several factors possibly contributing to resilience, low human population size and harvesting pressure, habitat enhancement, and suppression of competing predators do not appear to be of major importance. Flexible resource use, including human use of a range of local resources, many of which are linked in a food web with salmon, likely contributed to resilience. Most important were the beliefs and social institutions (including ownership, regulation, rituals, and monitoring) that placed restraints on salmon use as a common pool resource. In contrast, only a small fraction of our modern society relies economically on or has direct interaction with the fish, which limits our concern and willingness to fundamentally change behaviors that contribute to habitat degradation and loss, the main challenges facing salmon populations today. Salmon recovery efforts may benefit substantially from investing more resources into establishing links between community groups and actual fish populations, which would create a sense of proprietorship, one of the keys to resilience in the indigenous salmon fishery. Close

• 40. [Article] Habitat and Distribution of the Ruffed Lemur, "Varecia", North of the Bay of Antongil in Northeastern Madagascar

  Here we present information on the conservation status of ruffed lemurs (Varecia) north of the Bay of Antongil in northeastern Madagascar. Two contiguous protected areas were recently established that ...

  Citation × Citation Citation Abstract Copy Title: Habitat and Distribution of the Ruffed Lemur, "Varecia", North of the Bay of Antongil in Northeastern Madagascar Author: Hekkala, Evon R., Rakotondratsima, Marius, Vasey, Natalie Year: 2007 Here we present information on the conservation status of ruffed lemurs (Varecia) north of the Bay of Antongil in northeastern Madagascar. Two contiguous protected areas were recently established that traverse this region via blocks of forest connected by narrow forest corridors: the Masoala National Park, which expands further to the east, and the Makira Protected Area, which expands further to the west and northwest. The two extant ruffed lemurs, Varecia variegata and V. rubra, overlapped in this region historically and, on rare occasions, hybridized. As such, land north of the Bay of Antongil is a critical part of the ruffed lemur's northern geographic range. Habitat surveys and interviews with local informants were carried out in this region to determine the extent of suitable habitat for Varecia populations, to assess the extent of human exploitation of this genus, and to obtain data on the western and northern range limits of V. rubra. Interviews indicated that there are populations of V. rubraas far northwest as the confluence of the Antainambalana and Sahantaha Rivers. Surveys and interviews revealed extensive habitat degradation and lemur hunting in the three major river drainages north of the Bay of Antongil. The recent establishment of protected forest blocks and forest corridors in the region was critical, as these links will provide the only connections between Varecia populations that would otherwise be entirely isolated in forest patches surrounded by agricultural land. The geo-referenced habitat survey and the summary of interview results provided here can be used as comparators for future population and habitat assessments following the establishment of the protected areas. A primary direction for future work should be to examine how Varecia populations are adapting to conditions in and near forest corridors. Title: Habitat and Distribution of the Ruffed Lemur, "Varecia", North of the Bay of Antongil in Northeastern Madagascar Author: Hekkala, Evon R., Rakotondratsima, Marius, Vasey, Natalie Year: 2007 Here we present information on the conservation status of ruffed lemurs (Varecia) north of the Bay of Antongil in northeastern Madagascar. Two contiguous protected areas were recently established that traverse this region via blocks of forest connected by narrow forest corridors: the Masoala National Park, which expands further to the east, and the Makira Protected Area, which expands further to the west and northwest. The two extant ruffed lemurs, Varecia variegata and V. rubra, overlapped in this region historically and, on rare occasions, hybridized. As such, land north of the Bay of Antongil is a critical part of the ruffed lemur's northern geographic range. Habitat surveys and interviews with local informants were carried out in this region to determine the extent of suitable habitat for Varecia populations, to assess the extent of human exploitation of this genus, and to obtain data on the western and northern range limits of V. rubra. Interviews indicated that there are populations of V. rubraas far northwest as the confluence of the Antainambalana and Sahantaha Rivers. Surveys and interviews revealed extensive habitat degradation and lemur hunting in the three major river drainages north of the Bay of Antongil. The recent establishment of protected forest blocks and forest corridors in the region was critical, as these links will provide the only connections between Varecia populations that would otherwise be entirely isolated in forest patches surrounded by agricultural land. The geo-referenced habitat survey and the summary of interview results provided here can be used as comparators for future population and habitat assessments following the establishment of the protected areas. A primary direction for future work should be to examine how Varecia populations are adapting to conditions in and near forest corridors. Close

• 41. [Article] Northwest Forest Plan The First 20 Years (1994-2013): Watershed Condition Status and Trend

  We used two data sets to evaluate stream and upslope/riparian condition for sixth-field watersheds in each aquatic province within the Northwest Forest Plan (NWFP) area. The stream evaluation was based ...

  Citation × Citation Citation Abstract Copy Title: Northwest Forest Plan The First 20 Years (1994-2013): Watershed Condition Status and Trend Author: Miller, Stephanie A., Gordon, Sean N, Eldred, Peter, Beloin, Ronald M., Wilcox, Steve, Raggon, Mark, Andersen, Heidi, Muldoon, Ariel Year: 2015 We used two data sets to evaluate stream and upslope/riparian condition for sixth-field watersheds in each aquatic province within the Northwest Forest Plan (NWFP) area. The stream evaluation was based on stream sampling data collected from 2002 to the 2013 (214 watersheds) as part of an eight year repeating (rotating) sample design. We are currently halfway through our second rotation of stream sampling, and have repeated 110 watersheds since the second rotation began in 2009. The analysis presented in this report uses roughly half the number of watersheds as was originally intended by the sample design since re-visitation will not be completed until 2017. In the meantime, we compare the first rotation of visits (2002-2009) to the first four years of the second rotation (2010-2013) giving us a general idea of current patterns. To evaluate stream condition we used a reference condition nearest neighbor statistical approach to calculate the stream physical habitat scores based on substrate, wood, and pool metrics for each watershed. Macroinvertebrates and water temperature were analyzed separately from physical habitat and provide additional assessment of overall watershed condition. Scores for both stream and upslope/riparian conditions were normalized to fall between 0 (poor) and 100 (good). Title: Northwest Forest Plan The First 20 Years (1994-2013): Watershed Condition Status and Trend Author: Miller, Stephanie A., Gordon, Sean N, Eldred, Peter, Beloin, Ronald M., Wilcox, Steve, Raggon, Mark, Andersen, Heidi, Muldoon, Ariel Year: 2015 We used two data sets to evaluate stream and upslope/riparian condition for sixth-field watersheds in each aquatic province within the Northwest Forest Plan (NWFP) area. The stream evaluation was based on stream sampling data collected from 2002 to the 2013 (214 watersheds) as part of an eight year repeating (rotating) sample design. We are currently halfway through our second rotation of stream sampling, and have repeated 110 watersheds since the second rotation began in 2009. The analysis presented in this report uses roughly half the number of watersheds as was originally intended by the sample design since re-visitation will not be completed until 2017. In the meantime, we compare the first rotation of visits (2002-2009) to the first four years of the second rotation (2010-2013) giving us a general idea of current patterns. To evaluate stream condition we used a reference condition nearest neighbor statistical approach to calculate the stream physical habitat scores based on substrate, wood, and pool metrics for each watershed. Macroinvertebrates and water temperature were analyzed separately from physical habitat and provide additional assessment of overall watershed condition. Scores for both stream and upslope/riparian conditions were normalized to fall between 0 (poor) and 100 (good). Close

• 42. [Article] Planning in the Portland Metropolitan Area after Measure 37

  Created in the aftermath of Measure 37, the Russill Fellowship is aimed at examining non-regulatory land use planning tools and their potential application in the Portland Metropolitan area, with a particular ...

  Citation × Citation Citation Abstract Copy Title: Planning in the Portland Metropolitan Area after Measure 37 Author: Reid, Ted Year: 2006 Created in the aftermath of Measure 37, the Russill Fellowship is aimed at examining non-regulatory land use planning tools and their potential application in the Portland Metropolitan area, with a particular emphasis on habitat conservation. The above-mentioned ballot initiative and the larger private property rights movement have given an indication that Oregon voters perceive inequities in the State’s land use planning system. It is also clear that Oregonians still place a high value on the conservation of our state’s natural resources. According to a March, 2005 statewide survey, protecting farmland for farming is very important to 67% of respondents, protecting the environment is very important to 61%, and protecting wildlife habitat is very important to 58% (CFM Research, 2005). According to a more recent survey commissioned by Metro, 72% of respondents indicated that a policy to “add houses in existing neighborhoods” comes closer to how they feel while only 16% chose “convert farm and forest land for growth” (12% responded with “don’t know”) (Davis, Hibbits, & Midghall, Inc., 2006). Regardless of the legal status of Measure 37 or any future regulatory takings initiatives, the planner’s toolbox needs to be expanded, providing a wider variety of options to accomplish the Statewide Planning Goals. However, as the research for this paper progressed, a more complicated picture of planning and the use of regulations has emerged. It has become clear that non-regulatory planning instruments are no substitute for regulation in upholding Oregon’s Statewide Planning Goals. The above-cited survey indicates that Oregonians do still see the importance of the Goals. Thus, this paper has focused on the need for long-range planning, the relationship between planning and property values, the threat of sprawl in the Portland region, planning instruments that help to control such sprawl, and whether such instruments are able to attain Oregon’s Statewide Planning Goals. Title: Planning in the Portland Metropolitan Area after Measure 37 Author: Reid, Ted Year: 2006 Created in the aftermath of Measure 37, the Russill Fellowship is aimed at examining non-regulatory land use planning tools and their potential application in the Portland Metropolitan area, with a particular emphasis on habitat conservation. The above-mentioned ballot initiative and the larger private property rights movement have given an indication that Oregon voters perceive inequities in the State’s land use planning system. It is also clear that Oregonians still place a high value on the conservation of our state’s natural resources. According to a March, 2005 statewide survey, protecting farmland for farming is very important to 67% of respondents, protecting the environment is very important to 61%, and protecting wildlife habitat is very important to 58% (CFM Research, 2005). According to a more recent survey commissioned by Metro, 72% of respondents indicated that a policy to “add houses in existing neighborhoods” comes closer to how they feel while only 16% chose “convert farm and forest land for growth” (12% responded with “don’t know”) (Davis, Hibbits, & Midghall, Inc., 2006). Regardless of the legal status of Measure 37 or any future regulatory takings initiatives, the planner’s toolbox needs to be expanded, providing a wider variety of options to accomplish the Statewide Planning Goals. However, as the research for this paper progressed, a more complicated picture of planning and the use of regulations has emerged. It has become clear that non-regulatory planning instruments are no substitute for regulation in upholding Oregon’s Statewide Planning Goals. The above-cited survey indicates that Oregonians do still see the importance of the Goals. Thus, this paper has focused on the need for long-range planning, the relationship between planning and property values, the threat of sprawl in the Portland region, planning instruments that help to control such sprawl, and whether such instruments are able to attain Oregon’s Statewide Planning Goals. Close

• 43. [Article] Mitigating the impacts of Measure 37 : implementing a statewide transferable development rights program in Oregon

  Nonregulatory land use planning tools can be effective for achieving statewide planning goals, but only in a regulatory context. Measure 37 makes that regulatory context problematic, with planners’ flexibility ...

  Citation × Citation Citation Abstract Copy Title: Mitigating the impacts of Measure 37 : implementing a statewide transferable development rights program in Oregon Author: Grothaus, Mary L. Year: 2007 Nonregulatory land use planning tools can be effective for achieving statewide planning goals, but only in a regulatory context. Measure 37 makes that regulatory context problematic, with planners’ flexibility in making regulatory changes stymied. To conserve wildlife habitat after Measure 37, Oregon’s planners need to turn to these non-regulatory tools. One such tool is transferable development rights (TDRs). TDRs equitably preserve the ecosystem services of rural lands and promote efficient land use patterns. A rural property owner “transfers” her development rights to an urban developer by placing a conservation easement on her property and accepting payment from the developer, who profits from development bonuses. This payment could be declared compensation under Measure 37 and could mitigate the Measure’s potential development impacts. Title: Mitigating the impacts of Measure 37 : implementing a statewide transferable development rights program in Oregon Author: Grothaus, Mary L. Year: 2007 Nonregulatory land use planning tools can be effective for achieving statewide planning goals, but only in a regulatory context. Measure 37 makes that regulatory context problematic, with planners’ flexibility in making regulatory changes stymied. To conserve wildlife habitat after Measure 37, Oregon’s planners need to turn to these non-regulatory tools. One such tool is transferable development rights (TDRs). TDRs equitably preserve the ecosystem services of rural lands and promote efficient land use patterns. A rural property owner “transfers” her development rights to an urban developer by placing a conservation easement on her property and accepting payment from the developer, who profits from development bonuses. This payment could be declared compensation under Measure 37 and could mitigate the Measure’s potential development impacts. Close

• 44. [Article] Osmosis Alive – Algae Water Filtration System

  Goals: Our goals of this project was to: Obtain an energy efficient, self-sufficient system to help reduce waste and money, and reuse and recycle water. To have a successful, natural, and more self-sufficient ...

  Citation × Citation Citation Abstract Copy Title: Osmosis Alive – Algae Water Filtration System Author: Gurganus, Adrik, Soe, Htet Htet, Baird, Jonathan, Beckett, Liam, Vautravers, Nick, Swensen, Parker, Johnson, Tucker Year: 2015 Goals: Our goals of this project was to: Obtain an energy efficient, self-sufficient system to help reduce waste and money, and reuse and recycle water. To have a successful, natural, and more self-sufficient filtration system, using algae. To use algae and other plants as an efficient way to filter water. To create a water filtration system that is organic and would have 0 waste. To use the water in the best and most efficient way possible, and to reduce energy and coal/oil consumption (water turbine) To make our community cleaner and greener, and reduce carbon footprint, pollution, and environmental impact. When we started this project, our first thought was renewable energy. We wanted to create a self-sustaining urban habitat for Humans to live in. We eventually began to gravitate towards a more specific concept which would involve grey water treatment. While gray water is known to be used for in home appliances such as toilets, it's not really used to generate electricity. What we have created is a system that utilizes the kinetic energy of grey water to help power the system itself. The system includes both standard filters and a less common non-photosynthetic algae filter to allow better use of the recycled city rainwater. If one spends time in our fine city, they will certainly notice the many old buildings around Portland. Though, they have majesty and charm flowing out of the rafters, they are also often inefficient in many regards. The other thing they will likely notice is the consistent downpour Portland has during the winter months, and even an occasional trickle during the summer months. The Peaceful Penguins team also manages to be this observant. We saw in our tours that many of the greener buildings in Portland make use of grey water run offs, i.e. rain, and recycle it for use around the facility. We aim to truly re-envision the way we think about grey water and it’s recycling. Title: Osmosis Alive – Algae Water Filtration System Author: Gurganus, Adrik, Soe, Htet Htet, Baird, Jonathan, Beckett, Liam, Vautravers, Nick, Swensen, Parker, Johnson, Tucker Year: 2015 Goals: Our goals of this project was to: Obtain an energy efficient, self-sufficient system to help reduce waste and money, and reuse and recycle water. To have a successful, natural, and more self-sufficient filtration system, using algae. To use algae and other plants as an efficient way to filter water. To create a water filtration system that is organic and would have 0 waste. To use the water in the best and most efficient way possible, and to reduce energy and coal/oil consumption (water turbine) To make our community cleaner and greener, and reduce carbon footprint, pollution, and environmental impact. When we started this project, our first thought was renewable energy. We wanted to create a self-sustaining urban habitat for Humans to live in. We eventually began to gravitate towards a more specific concept which would involve grey water treatment. While gray water is known to be used for in home appliances such as toilets, it's not really used to generate electricity. What we have created is a system that utilizes the kinetic energy of grey water to help power the system itself. The system includes both standard filters and a less common non-photosynthetic algae filter to allow better use of the recycled city rainwater. If one spends time in our fine city, they will certainly notice the many old buildings around Portland. Though, they have majesty and charm flowing out of the rafters, they are also often inefficient in many regards. The other thing they will likely notice is the consistent downpour Portland has during the winter months, and even an occasional trickle during the summer months. The Peaceful Penguins team also manages to be this observant. We saw in our tours that many of the greener buildings in Portland make use of grey water run offs, i.e. rain, and recycle it for use around the facility. We aim to truly re-envision the way we think about grey water and it’s recycling. Close

• 45. [Article] Biological Erosion of Marine Habitats and Structures by Burrowing Crustaceans

  Marine bioeroders, borers, and burrowers can have drastic effects to marine habitats and facilities. By physically altering the structure of marine habitats, these organisms may elicit ecosystem-level ...

  Citation × Citation Citation Abstract Copy Title: Biological Erosion of Marine Habitats and Structures by Burrowing Crustaceans Author: Davidson, Timothy Mathias Year: 2011 Marine bioeroders, borers, and burrowers can have drastic effects to marine habitats and facilities. By physically altering the structure of marine habitats, these organisms may elicit ecosystem-level effects that cascade through the community. While borer damage is typically restricted to a few substratum types, burrowing isopods in the genus Sphaeroma attack a diversity of substrata in tropical and temperate systems. My dissertation examined how boring sphaeromatid isopods affect coastal habitats (saltmarshes, mangroves) and other estuarine substrata as well as marine structures. I used a combination of lab and mensurative field experiments to quantify the effects of boring by isopods and examine how select factors affect the colonization, hence burrowing damage by isopods. I explored these questions primarily using the temperate boring sphaeromatid, Sphaeroma quoianum, as a model organism. My initial lab experiments quantified the per capita erosion rates of S. quoianum in four commonly attacked estuarine substrata. I found marsh banks and Styrofoam substrata were the most affected per capita. I supplemented this lab experiment with a year-long mensurative field experiment examining how erosion rates differ between marshes infested and uninfested by boring isopods. Marshes infested with isopods eroded 300% faster than uninfested marshes. I further examined the boring effects on Styrofoam floats. I compiled surveys and observations and conducted a short experiment to describe how isopods affect Styrofoam floats used in floating docks. I observed dense colonies of isopods attacking floats and expelling millions of plastic particles in the ocean. The boring effects to simulated Styrofoam floats were also affected by seawater temperature. Burrowing effects in Styrofoam floats exhibited a curvilinear relationship with temperature and peaked around 18°C. These results suggest a 1-2°C increase in water temperature could increase boring effects 5-17% of populations of isopods in Oregon and California bays. To examine the small-scale factors that mediate colonization and boring, I conducted a series of binary choice experiments. I found the presence of conspecifics, biofilm, and shade were important factors influencing colonization. These small scale factors likely explain why isopod attack is focused in some substrata. Finally, to examine the boring effects of tropical isopods in mangroves, I examined the associations between burrowing by S. terebrans and mangrove performance and fecundity. I found negative relationships between boring effects and performance and fecundity in two mangrove species in a restored mangrove stand in Taiwan. Together, these studies elucidate the effects of bioerosive isopods on saltmarshes, mangroves, and marine structures. However, the similar mechanisms involved in bioerosion in other boring species suggest that these results can be used to infer similar effects of other borers. In addition, since many species of sphaeromatid isopods have been introduced, this research shows how the effects of a non-native bioeroder can damage marine facilities and degrade and alter marine habitats. Through biological erosion and thus changing the physical structure of a marine habitat these non-native species can have ecosystem-level effects that cascade throughout the local community. Title: Biological Erosion of Marine Habitats and Structures by Burrowing Crustaceans Author: Davidson, Timothy Mathias Year: 2011 Marine bioeroders, borers, and burrowers can have drastic effects to marine habitats and facilities. By physically altering the structure of marine habitats, these organisms may elicit ecosystem-level effects that cascade through the community. While borer damage is typically restricted to a few substratum types, burrowing isopods in the genus Sphaeroma attack a diversity of substrata in tropical and temperate systems. My dissertation examined how boring sphaeromatid isopods affect coastal habitats (saltmarshes, mangroves) and other estuarine substrata as well as marine structures. I used a combination of lab and mensurative field experiments to quantify the effects of boring by isopods and examine how select factors affect the colonization, hence burrowing damage by isopods. I explored these questions primarily using the temperate boring sphaeromatid, Sphaeroma quoianum, as a model organism. My initial lab experiments quantified the per capita erosion rates of S. quoianum in four commonly attacked estuarine substrata. I found marsh banks and Styrofoam substrata were the most affected per capita. I supplemented this lab experiment with a year-long mensurative field experiment examining how erosion rates differ between marshes infested and uninfested by boring isopods. Marshes infested with isopods eroded 300% faster than uninfested marshes. I further examined the boring effects on Styrofoam floats. I compiled surveys and observations and conducted a short experiment to describe how isopods affect Styrofoam floats used in floating docks. I observed dense colonies of isopods attacking floats and expelling millions of plastic particles in the ocean. The boring effects to simulated Styrofoam floats were also affected by seawater temperature. Burrowing effects in Styrofoam floats exhibited a curvilinear relationship with temperature and peaked around 18°C. These results suggest a 1-2°C increase in water temperature could increase boring effects 5-17% of populations of isopods in Oregon and California bays. To examine the small-scale factors that mediate colonization and boring, I conducted a series of binary choice experiments. I found the presence of conspecifics, biofilm, and shade were important factors influencing colonization. These small scale factors likely explain why isopod attack is focused in some substrata. Finally, to examine the boring effects of tropical isopods in mangroves, I examined the associations between burrowing by S. terebrans and mangrove performance and fecundity. I found negative relationships between boring effects and performance and fecundity in two mangrove species in a restored mangrove stand in Taiwan. Together, these studies elucidate the effects of bioerosive isopods on saltmarshes, mangroves, and marine structures. However, the similar mechanisms involved in bioerosion in other boring species suggest that these results can be used to infer similar effects of other borers. In addition, since many species of sphaeromatid isopods have been introduced, this research shows how the effects of a non-native bioeroder can damage marine facilities and degrade and alter marine habitats. Through biological erosion and thus changing the physical structure of a marine habitat these non-native species can have ecosystem-level effects that cascade throughout the local community. Close

• 46. [Article] The Impeccable Timing of the Apple Maggot Fly, <i>Rhagoletis pomonella</i> (Dipetera: Tephritidae), and its Implications for Ecological Speciation

  Speciation is the process by which life diversifies into discrete forms, and understanding its underlying mechanisms remains a primary focus for biologists. Increasingly, empirical studies are helping ...

  Citation × Citation Citation Abstract Copy Title: The Impeccable Timing of the Apple Maggot Fly, <i>Rhagoletis pomonella</i> (Dipetera: Tephritidae), and its Implications for Ecological Speciation Author: Mattsson, Monte Arthur Year: 2015 Speciation is the process by which life diversifies into discrete forms, and understanding its underlying mechanisms remains a primary focus for biologists. Increasingly, empirical studies are helping explain the role of ecology in generating biodiversity. Adaptive radiations are often propelled by selective fitness tradeoffs experienced by individuals that invade new habitats, resulting in reproductive isolation from ancestral conspecifics and potentially cladogenesis. Host specialist insects are among the most speciose organisms known and serve as highly useful models for studying adaptive radiations. We are just beginning to understand the pace and degree with which these insects diversify. The apple maggot, Rhagoletis pomonella, is a well-studied insect whose eastern and southern populations are models for ecological speciation. Recently (40–65 ya), the fly has invaded the Pacific Northwestern United States through human-transported apples infested with larvae. There, populations of R. pomonella have rapidly colonized two novel hawthorn hosts whose fruiting times bracket apple’s (early-season native Crataegus douglasii and introduced C. monogyna, which fruits late in the season). The recent introduction might initiate host shifts, providing opportunities to examine the pace and mechanistic means with which host races (an evolutionary stage preceding speciation) become established. Here, I demonstrate that host-associated populations at a site in southwest Washington are partially allochronically isolated from one another, and life cycles temporally match with natal host fruit ripening times in sympatry. If spatially widespread, these temporal barriers could result in reproductive isolation and possibly cladogenesis. Implications of these findings reach beyond academic import, as R. pomonella is expanding not only its host range, but its geographic range is encroaching upon central Washington, the site of a multi-billion dollar per year apple-growing industry. Title: The Impeccable Timing of the Apple Maggot Fly, <i>Rhagoletis pomonella</i> (Dipetera: Tephritidae), and its Implications for Ecological Speciation Author: Mattsson, Monte Arthur Year: 2015 Speciation is the process by which life diversifies into discrete forms, and understanding its underlying mechanisms remains a primary focus for biologists. Increasingly, empirical studies are helping explain the role of ecology in generating biodiversity. Adaptive radiations are often propelled by selective fitness tradeoffs experienced by individuals that invade new habitats, resulting in reproductive isolation from ancestral conspecifics and potentially cladogenesis. Host specialist insects are among the most speciose organisms known and serve as highly useful models for studying adaptive radiations. We are just beginning to understand the pace and degree with which these insects diversify. The apple maggot, Rhagoletis pomonella, is a well-studied insect whose eastern and southern populations are models for ecological speciation. Recently (40–65 ya), the fly has invaded the Pacific Northwestern United States through human-transported apples infested with larvae. There, populations of R. pomonella have rapidly colonized two novel hawthorn hosts whose fruiting times bracket apple’s (early-season native Crataegus douglasii and introduced C. monogyna, which fruits late in the season). The recent introduction might initiate host shifts, providing opportunities to examine the pace and mechanistic means with which host races (an evolutionary stage preceding speciation) become established. Here, I demonstrate that host-associated populations at a site in southwest Washington are partially allochronically isolated from one another, and life cycles temporally match with natal host fruit ripening times in sympatry. If spatially widespread, these temporal barriers could result in reproductive isolation and possibly cladogenesis. Implications of these findings reach beyond academic import, as R. pomonella is expanding not only its host range, but its geographic range is encroaching upon central Washington, the site of a multi-billion dollar per year apple-growing industry. Close

• 47. [Article] The Impact of Fine Sediment on Stream Macroinvertebrates in Urban and Rural Oregon Streams

  Urbanization, often characterized by high impervious surface area, can result in excessive inputs of fine sediments into urban streams. Excessive fine sediments can blanket the stream bed filling the interstitial ...

  Citation × Citation Citation Abstract Copy Title: The Impact of Fine Sediment on Stream Macroinvertebrates in Urban and Rural Oregon Streams Author: Hoy, Raymond S. Year: 2001 Urbanization, often characterized by high impervious surface area, can result in excessive inputs of fine sediments into urban streams. Excessive fine sediments can blanket the stream bed filling the interstitial space in the substratum, which may have adverse effects on stream biota. A field survey was conducted in Oregon urban and non-urban basins to investigate the relationship between fine sediments and stream macroinvertebrates. Physical, chemical, and biological data were collected from 59 stream sites in two urban and two rural streams. The stream sites fulfilled a continuous sediment gradient, which ranged from a low of 2% of fine sediment in the substrate to a high of 64% with an average of 22%. The % fines, in Clear Creek (rural basin) was significantly lower than in the urban basins (Johnson Creek and Tryon Creek) (p=0.005). Johnson Creek (mean=23%) had approximately three times more fine sediment than Clear Creek (mean=7%), while Tryon Creek (mean=32%) had nearly five times as much fine sediment as Clear Creek. EPT taxa richness was significantly higher in both rural streams than in both urban streams (p0.05). For example, regression analysis of EPT taxa richness vs. % fine sediments displayed a coefficient of determination (r2) value of 0.2. Other macro invertebrates metrics displayed similar patterns. The lack of significant correlations may be due to the cumulative effect of basin-wide "historical land use past". Past land use activity may have resulted in long-term reductions of sensitive taxa in the basin taxa pool and efforts to improve local habitats may not be quickly colonized by pollution sensitive taxa. Long-term degradation to the urban streams resulted in a relatively homogenous assemblage of macro invertebrates, which may have confounded the quantitative relationship between sediments and macroinvertebrates. This study suggests there is a clear difference between urban and non-urban streams in terms of macro invertebrates, which may be likely due to sediments, but the quantitative relationship between fine sediments and macro invertebrates is weak. Title: The Impact of Fine Sediment on Stream Macroinvertebrates in Urban and Rural Oregon Streams Author: Hoy, Raymond S. Year: 2001 Urbanization, often characterized by high impervious surface area, can result in excessive inputs of fine sediments into urban streams. Excessive fine sediments can blanket the stream bed filling the interstitial space in the substratum, which may have adverse effects on stream biota. A field survey was conducted in Oregon urban and non-urban basins to investigate the relationship between fine sediments and stream macroinvertebrates. Physical, chemical, and biological data were collected from 59 stream sites in two urban and two rural streams. The stream sites fulfilled a continuous sediment gradient, which ranged from a low of 2% of fine sediment in the substrate to a high of 64% with an average of 22%. The % fines, in Clear Creek (rural basin) was significantly lower than in the urban basins (Johnson Creek and Tryon Creek) (p=0.005). Johnson Creek (mean=23%) had approximately three times more fine sediment than Clear Creek (mean=7%), while Tryon Creek (mean=32%) had nearly five times as much fine sediment as Clear Creek. EPT taxa richness was significantly higher in both rural streams than in both urban streams (p0.05). For example, regression analysis of EPT taxa richness vs. % fine sediments displayed a coefficient of determination (r2) value of 0.2. Other macro invertebrates metrics displayed similar patterns. The lack of significant correlations may be due to the cumulative effect of basin-wide "historical land use past". Past land use activity may have resulted in long-term reductions of sensitive taxa in the basin taxa pool and efforts to improve local habitats may not be quickly colonized by pollution sensitive taxa. Long-term degradation to the urban streams resulted in a relatively homogenous assemblage of macro invertebrates, which may have confounded the quantitative relationship between sediments and macroinvertebrates. This study suggests there is a clear difference between urban and non-urban streams in terms of macro invertebrates, which may be likely due to sediments, but the quantitative relationship between fine sediments and macro invertebrates is weak. Close

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

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

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

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

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

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

• 50. [Article] Informal Trails and the Spread of Invasive Species in Urban Natural Areas: Spatial Analysis of Informal Trails and their Effects on Understory Plant Communities in Forest Park, Portland, Oregon

  The risk of spread and establishment of invasive species to interior habitat within urban parks is of great concern to park managers and ecologists. Informal trails as a vector for this transmission are ...

  Citation × Citation Citation Abstract Copy Title: Informal Trails and the Spread of Invasive Species in Urban Natural Areas: Spatial Analysis of Informal Trails and their Effects on Understory Plant Communities in Forest Park, Portland, Oregon Author: Van Winkle, Jill Elise Year: 2014 The risk of spread and establishment of invasive species to interior habitat within urban parks is of great concern to park managers and ecologists. Informal trails as a vector for this transmission are not well understood. To characterize effects of informal trails on understory plant communities, I conducted a study of the informal trail network in Forest Park, Portland, Oregon. The system of 382 informal trails was mapped and evaluated qualitatively, and from this population a systematic sample was selected for analysis. To identify hotspots of informal trail activity, showing the relationship of informal trails to formal trails, other park features, and trail use level, I evaluated all mapped trails using line density spatial analysis tools. To characterize understory communities, thirty transects were placed along informal trails, with paired transects along nearby formal trails for comparison. I measured percent cover by species for non-graminoid understory plants, and percent total plant cover at different structural layers, for quadrats at regular intervals from the trail edge. I calculated richness and Shannon-Weaver diversity for non-graminoid understory plants. For community analysis, species were grouped by dispersal strategy, native status, and growth form. Observations from system mapping suggest that "hidden" behaviors drive many informal trails: bathroom stops, party spots, waste dumping, and camps make up 28% of all informal trails. Trails to private property are few but represent over 29% of total trail length. Informal trail density is highest along Balch Creek. Hotspots of informal trail presence are associated with trailheads, trail intersections, and water access. Quadrats located within one meter of informal trails showed higher richness and diversity due to increased number of introduced and ruderal species. Formal trails exhibit these same patterns to a stronger degree and over a greater distance (two meters) from the trail edge. Distance from trail edge explained variation in plant communities when grouped by dispersal type, but not by growth form. This study shows that although informal trails are widely distributed throughout the park, they are concentrated in high use areas. The presence of informal trails leads to significant changes in Forest Park plant communities that favor invasive and ruderal species, but these effects appear limited to two meters from the trail edge. Title: Informal Trails and the Spread of Invasive Species in Urban Natural Areas: Spatial Analysis of Informal Trails and their Effects on Understory Plant Communities in Forest Park, Portland, Oregon Author: Van Winkle, Jill Elise Year: 2014 The risk of spread and establishment of invasive species to interior habitat within urban parks is of great concern to park managers and ecologists. Informal trails as a vector for this transmission are not well understood. To characterize effects of informal trails on understory plant communities, I conducted a study of the informal trail network in Forest Park, Portland, Oregon. The system of 382 informal trails was mapped and evaluated qualitatively, and from this population a systematic sample was selected for analysis. To identify hotspots of informal trail activity, showing the relationship of informal trails to formal trails, other park features, and trail use level, I evaluated all mapped trails using line density spatial analysis tools. To characterize understory communities, thirty transects were placed along informal trails, with paired transects along nearby formal trails for comparison. I measured percent cover by species for non-graminoid understory plants, and percent total plant cover at different structural layers, for quadrats at regular intervals from the trail edge. I calculated richness and Shannon-Weaver diversity for non-graminoid understory plants. For community analysis, species were grouped by dispersal strategy, native status, and growth form. Observations from system mapping suggest that "hidden" behaviors drive many informal trails: bathroom stops, party spots, waste dumping, and camps make up 28% of all informal trails. Trails to private property are few but represent over 29% of total trail length. Informal trail density is highest along Balch Creek. Hotspots of informal trail presence are associated with trailheads, trail intersections, and water access. Quadrats located within one meter of informal trails showed higher richness and diversity due to increased number of introduced and ruderal species. Formal trails exhibit these same patterns to a stronger degree and over a greater distance (two meters) from the trail edge. Distance from trail edge explained variation in plant communities when grouped by dispersal type, but not by growth form. This study shows that although informal trails are widely distributed throughout the park, they are concentrated in high use areas. The presence of informal trails leads to significant changes in Forest Park plant communities that favor invasive and ruderal species, but these effects appear limited to two meters from the trail edge. Close