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

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

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

• 2. [Article] Pine Creek Conservation Area: 2013 Mapping and Monitoring Report

  Pine Creek Conservation Area (PCCA), just northeast of the John Day River in Wheeler County, Oregon, was acquired in 1999-2001 by the Confederate Tribes of Warm Springs with support from the Bonneville ...

  Citation × Citation Citation Abstract Copy Title: Pine Creek Conservation Area: 2013 Mapping and Monitoring Report Author: Nielsen, Eric M., Noone, Matthew D., Kagan, James S., Lee, Matthew T. Year: 2013 Pine Creek Conservation Area (PCCA), just northeast of the John Day River in Wheeler County, Oregon, was acquired in 1999-2001 by the Confederate Tribes of Warm Springs with support from the Bonneville Power Administration (BPA), to mitigate for wildlife losses created by the large, hydropower Columbia River Dams, particularly the Bonneville, Dalles and John Day Dams. Many thousands of acres of grassland, shrub steppe and riparian habitats were lost due to inundation, and the objectives of the acquisition included restoration of similar habitats. As part of an interagency agreement created in 2002, the Oregon Natural Heritage Information Center established a baseline monitoring program in 2002. This effort included the establishment of permanent monitoring plots to allow for a detailed assessment of vegetation change in the plant communities occurring at the site. It also included the development of an existing vegetation map, hopefully to allow for an analysis of overall vegetation change across the conservation area. The map showed the distribution of western juniper, native grasslands, big sagebrush, and weed-dominated areas at the site. In the eight years since the original map was made, a series of management actions, including juniper clearing, prescribed fires, and riparian restoration activities have significantly changed the vegetation at PCCA. In the spring and summer of 2010, the Oregon Natural Heritage Information Center, now the Oregon Biodiversity Information Center at Portland State University, visited the area to assist the land manager in developing a strategy for meeting the information needs of the Tribes and BPA in evaluating the success of the first decade of restoration. This report details that effort, which incorporated a combination of field inspection, photo-interpretation, and remote sensing-based mapping to assess change since the establishment of the conservation area, to lay a new baseline against which to measure future change, and most importantly to provide detailed information useful for land management decision making in the continuing restoration efforts. Title: Pine Creek Conservation Area: 2013 Mapping and Monitoring Report Author: Nielsen, Eric M., Noone, Matthew D., Kagan, James S., Lee, Matthew T. Year: 2013 Pine Creek Conservation Area (PCCA), just northeast of the John Day River in Wheeler County, Oregon, was acquired in 1999-2001 by the Confederate Tribes of Warm Springs with support from the Bonneville Power Administration (BPA), to mitigate for wildlife losses created by the large, hydropower Columbia River Dams, particularly the Bonneville, Dalles and John Day Dams. Many thousands of acres of grassland, shrub steppe and riparian habitats were lost due to inundation, and the objectives of the acquisition included restoration of similar habitats. As part of an interagency agreement created in 2002, the Oregon Natural Heritage Information Center established a baseline monitoring program in 2002. This effort included the establishment of permanent monitoring plots to allow for a detailed assessment of vegetation change in the plant communities occurring at the site. It also included the development of an existing vegetation map, hopefully to allow for an analysis of overall vegetation change across the conservation area. The map showed the distribution of western juniper, native grasslands, big sagebrush, and weed-dominated areas at the site. In the eight years since the original map was made, a series of management actions, including juniper clearing, prescribed fires, and riparian restoration activities have significantly changed the vegetation at PCCA. In the spring and summer of 2010, the Oregon Natural Heritage Information Center, now the Oregon Biodiversity Information Center at Portland State University, visited the area to assist the land manager in developing a strategy for meeting the information needs of the Tribes and BPA in evaluating the success of the first decade of restoration. This report details that effort, which incorporated a combination of field inspection, photo-interpretation, and remote sensing-based mapping to assess change since the establishment of the conservation area, to lay a new baseline against which to measure future change, and most importantly to provide detailed information useful for land management decision making in the continuing restoration efforts. Close

• 3. [Article] Analyzing Dam Feasibility in the Willamette River Watershed

  This study conducts a dam-scale cost versus benefit analysis in order to explore the feasibility of each the 13 U.S. Army Corps of Engineers (USACE) commissioned dams in Oregon’s Willamette River network. ...

  Citation × Citation Citation Abstract Copy Title: Analyzing Dam Feasibility in the Willamette River Watershed Author: Nagel, Alexander Cameron Year: 2017 This study conducts a dam-scale cost versus benefit analysis in order to explore the feasibility of each the 13 U.S. Army Corps of Engineers (USACE) commissioned dams in Oregon’s Willamette River network. Constructed between 1941 and 1969, these structures function in collaboration to comprise the Willamette River Basin Reservoir System (WRBRS). The motivation for this project derives from a growing awareness of the biophysical impacts that dam structures can have on riparian habitats. This project compares each of the 13 dams being assessed, to prioritize their level of utility within the system. The study takes the metrics from the top three services (flood regulation, hydropower generation and recreation) and disservices (fish mortality, structural risk and water temperature hazards) and creates a rubric that scores the feasibility of each dam within the system. Within a range between 0 to 3 for three dam services and 0 to -4.5 for two disservices, the overall calculated score elucidates for each structure whether its contribution to the WRBRS is positive or negative. Further analysis searches for spatiotemporal trends such as anomalous tributaries or magnified structural risk for structures exceeding a certain age. GIS data from the National Inventory of Dams (NID), U.S. Geologic Survey (USGS) water measurements, raw data from USACE, and peer-reviewed studies comprise the statistics that generate results for this analysis. The computed scores for each dam yield an average overall score of -1.31, and nine of the 13 structures have negative results, indicating that the WRBRS faces challenges going forward. The study seeks to contribute to the increasingly relevant examination of dam networks at the watershed scale. Title: Analyzing Dam Feasibility in the Willamette River Watershed Author: Nagel, Alexander Cameron Year: 2017 This study conducts a dam-scale cost versus benefit analysis in order to explore the feasibility of each the 13 U.S. Army Corps of Engineers (USACE) commissioned dams in Oregon’s Willamette River network. Constructed between 1941 and 1969, these structures function in collaboration to comprise the Willamette River Basin Reservoir System (WRBRS). The motivation for this project derives from a growing awareness of the biophysical impacts that dam structures can have on riparian habitats. This project compares each of the 13 dams being assessed, to prioritize their level of utility within the system. The study takes the metrics from the top three services (flood regulation, hydropower generation and recreation) and disservices (fish mortality, structural risk and water temperature hazards) and creates a rubric that scores the feasibility of each dam within the system. Within a range between 0 to 3 for three dam services and 0 to -4.5 for two disservices, the overall calculated score elucidates for each structure whether its contribution to the WRBRS is positive or negative. Further analysis searches for spatiotemporal trends such as anomalous tributaries or magnified structural risk for structures exceeding a certain age. GIS data from the National Inventory of Dams (NID), U.S. Geologic Survey (USGS) water measurements, raw data from USACE, and peer-reviewed studies comprise the statistics that generate results for this analysis. The computed scores for each dam yield an average overall score of -1.31, and nine of the 13 structures have negative results, indicating that the WRBRS faces challenges going forward. The study seeks to contribute to the increasingly relevant examination of dam networks at the watershed scale. Close

• 4. [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

• 5. [Article] Modeling and Mapping in Support of the Regional Conservational Strategy Framework

  Prior to November 2010, when The Intertwine Alliance launched the Regional Conservation Strategy (RCS) and Biodiversity Guide (RBG) efforts for the Portland-Vancouver metropolitan region, conservation ...

  Citation × Citation Citation Abstract Copy Title: Modeling and Mapping in Support of the Regional Conservational Strategy Framework Author: Burcsu, Theresa, Albo, Thomas, Bernert, Joseph, Dimiceli, Jennifer, Kagan, James S., Noone, Matthew D. Year: 2013 Prior to November 2010, when The Intertwine Alliance launched the Regional Conservation Strategy (RCS) and Biodiversity Guide (RBG) efforts for the Portland-Vancouver metropolitan region, conservation priorities in the metropolitan region were identified at a broad regional scale that generally excluded urban areas (e.g., state conservation strategies and Willamette Synthesis); were regional but based solely on expert opinion (e.g., Natural Features); and consisted of localized priorities that abruptly ended at jurisdiction boundaries. The goal of the RCS was to fill in the gaps between broad and local scales of information related to conservation priorities. RCS members envisioned a data-driven approach that could add a regional perspective to local efforts and facilitate cross-scale cooperation toward protecting remaining valuable habitat in the Portland-Vancouver metropolitan region. Also, RCS members expected that the product would complement rather than replace local knowledge, by validating what we know and expanding to areas we know less well. In June 2011, INR completed an initial proof-of-concept product describing high value conservation areas in the Portland-Vancouver region. The product demonstrated a methodology that enabled stakeholder involvement while also being data-driven. In September 2012, we completed a second version of this product that is reported on in this document. While the product is considered complete at this time, it is expected and hoped that the models and data will be updated and improved upon into the future as more and better information becomes available so that the product functions as a "living work" rather than a one-time snapshot in time. Several key products resulted from the project: the High Value Habitat data describing high value terrestrial habitat within the metropolitan region, the Riparian Habitat data describing high value habitat adjacent to streams and rivers, and the high spatial resolution land cover data set describing land cover at a 5 m spatial resolution. Title: Modeling and Mapping in Support of the Regional Conservational Strategy Framework Author: Burcsu, Theresa, Albo, Thomas, Bernert, Joseph, Dimiceli, Jennifer, Kagan, James S., Noone, Matthew D. Year: 2013 Prior to November 2010, when The Intertwine Alliance launched the Regional Conservation Strategy (RCS) and Biodiversity Guide (RBG) efforts for the Portland-Vancouver metropolitan region, conservation priorities in the metropolitan region were identified at a broad regional scale that generally excluded urban areas (e.g., state conservation strategies and Willamette Synthesis); were regional but based solely on expert opinion (e.g., Natural Features); and consisted of localized priorities that abruptly ended at jurisdiction boundaries. The goal of the RCS was to fill in the gaps between broad and local scales of information related to conservation priorities. RCS members envisioned a data-driven approach that could add a regional perspective to local efforts and facilitate cross-scale cooperation toward protecting remaining valuable habitat in the Portland-Vancouver metropolitan region. Also, RCS members expected that the product would complement rather than replace local knowledge, by validating what we know and expanding to areas we know less well. In June 2011, INR completed an initial proof-of-concept product describing high value conservation areas in the Portland-Vancouver region. The product demonstrated a methodology that enabled stakeholder involvement while also being data-driven. In September 2012, we completed a second version of this product that is reported on in this document. While the product is considered complete at this time, it is expected and hoped that the models and data will be updated and improved upon into the future as more and better information becomes available so that the product functions as a "living work" rather than a one-time snapshot in time. Several key products resulted from the project: the High Value Habitat data describing high value terrestrial habitat within the metropolitan region, the Riparian Habitat data describing high value habitat adjacent to streams and rivers, and the high spatial resolution land cover data set describing land cover at a 5 m spatial resolution. Close

• 6. [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

• 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] Efficacy of Plastic Mesh Tubes in Reducing Herbivory Damage by the Invasive Nutria (Myocastor coypus) in an Urban Restoration Site

  The restoration of stream corridors is becoming an increasingly important component of urban landscape planning, and the high cost of these projects necessitates the need to understand and address potential ...

  Citation × Citation Citation Abstract Copy Title: Efficacy of Plastic Mesh Tubes in Reducing Herbivory Damage by the Invasive Nutria (Myocastor coypus) in an Urban Restoration Site Author: Sheffels, Trevor R., Sytsma, Mark D., Carter, Jacoby, Taylor, Jimmy D. Year: 2014 The restoration of stream corridors is becoming an increasingly important component of urban landscape planning, and the high cost of these projects necessitates the need to understand and address potential ecological obstacles to project success. The nutria (Myocastor coypus) is an invasive, semi-aquatic rodent native to South America that causes detrimental ecological impacts in riparian and wetland habitats throughout its introduced range, and techniques are needed to reduce nutria herbivory damage to urban stream restoration projects. We assessed the efficacy of standard Vexar® plastic mesh tubes in reducing nutria herbivory damage to newly established woody plants. The study was conducted in winter-spring 2009 at Delta Ponds, a 60-ha urban waterway in Eugene, Oregon. Woody plants protected by Vexar® tubes demonstrated 100% survival over the 3-month initial establishment period, while only 17% of unprotected plantings survived. Nutria demonstrated a preference for black cottonwood(Populus balsamifera ssp trichocarpa) over red osier dogwood (Cornus sericea) and willow (Salix spp). Camera surveillance showed that nutria were more active in unprotected rather than protected treatments. Our results suggest that Vexar® plastic mesh tubing can be an effective short-term herbivory mitigation tool when habitat use by nutria is low. Additionally, planting functionally equivalent woody plant species that are less preferred by nutria, and other herbivores, may be another method for reducing herbivory and improving revegetation success. This study highlights the need to address potential wildlife damage conflicts in the planning process for stream restoration in urban landscapes. Title: Efficacy of Plastic Mesh Tubes in Reducing Herbivory Damage by the Invasive Nutria (Myocastor coypus) in an Urban Restoration Site Author: Sheffels, Trevor R., Sytsma, Mark D., Carter, Jacoby, Taylor, Jimmy D. Year: 2014 The restoration of stream corridors is becoming an increasingly important component of urban landscape planning, and the high cost of these projects necessitates the need to understand and address potential ecological obstacles to project success. The nutria (Myocastor coypus) is an invasive, semi-aquatic rodent native to South America that causes detrimental ecological impacts in riparian and wetland habitats throughout its introduced range, and techniques are needed to reduce nutria herbivory damage to urban stream restoration projects. We assessed the efficacy of standard Vexar® plastic mesh tubes in reducing nutria herbivory damage to newly established woody plants. The study was conducted in winter-spring 2009 at Delta Ponds, a 60-ha urban waterway in Eugene, Oregon. Woody plants protected by Vexar® tubes demonstrated 100% survival over the 3-month initial establishment period, while only 17% of unprotected plantings survived. Nutria demonstrated a preference for black cottonwood(Populus balsamifera ssp trichocarpa) over red osier dogwood (Cornus sericea) and willow (Salix spp). Camera surveillance showed that nutria were more active in unprotected rather than protected treatments. Our results suggest that Vexar® plastic mesh tubing can be an effective short-term herbivory mitigation tool when habitat use by nutria is low. Additionally, planting functionally equivalent woody plant species that are less preferred by nutria, and other herbivores, may be another method for reducing herbivory and improving revegetation success. This study highlights the need to address potential wildlife damage conflicts in the planning process for stream restoration in urban landscapes. Close

• 9. [Article] Report on Nutria Management and Research in the Pacific Northwest

  The nutria (Myocastor coypus) is a large semi-aquatic mammal native to South America that has been introduced to numerous countries around the world, primarily for fur farming. Nutria were introduced in ...

  Citation × Citation Citation Abstract Copy Title: Report on Nutria Management and Research in the Pacific Northwest Author: Sheffels, Trevor Robert, Sytsma, Mark Year: 2007 The nutria (Myocastor coypus) is a large semi-aquatic mammal native to South America that has been introduced to numerous countries around the world, primarily for fur farming. Nutria were introduced in Oregon and Washington in the 1930s, and feral populations were documented in 1943. Populations are known to be expanding in both Oregon and Washington, and regional nutria damage and nuisance complaints have increased in recent years. Most of the extensive damage caused by nutria is a direct result of feeding and burrowing, but nutria are also capable of transporting parasites and pathogens transmittable to humans, livestock, and pets. Although several past regional and local nutria research and management projects have been identified, there is a shortage of nutria information from the Pacific Northwest considering that the species has been present in the region for approximately seventy years. The Center for Lakes and Reservoirs (CLR) at Portland State University (PSU), in partnership with several local, state, and federal agencies, has taken the lead in addressing the regional nutria problem. Activities completed to date include a regional nutria management workshop, the ongoing development of a regional nutria distribution/density map, and a research project to analyze the impact of nutria herbivory on regional riparian wetland habitat restoration projects. In addition, the CLR at PSU is participating in the development of the national Aquatic Nuisance Species Task Force nutria management plan. This initial assessment of the current nutria situation in the Pacific Northwest conducted by the CLR at PSU has revealed that regional nutria problems are more extensive than previously realized. Nutria sightings have now been confirmed from the Canadian border to near the southern border of Oregon, confirming a larger range than was previously known. It was also found that the main nutria issues in the Pacific Northwest differ from the main nutria issues in Louisiana and Maryland. For example, the most significant category of regional nutria damage appears to be the destruction of water control structures and associated erosion caused by nutria burrowing, as opposed to nutria herbivory damage in Louisiana and Maryland. Another unique situation in the Pacific Northwest is the high density of nutria populations in urban areas, increasing the potential for conflicts between nutria and humans. Nutria attacks have been reported in isolated cases, and nutria are rodents that carry a variety of transmittable parasites and pathogens. It has also been confirmed that significant regional nutria herbivory damage does occur at some locations. Fortunately, it has become evident through the course of this assessment that a strong regional interest to address the nutria problem exists. A wide variety of agencies and organizations across the region are being negatively impacted by nutria, and these entities are ready to move forward to develop a feasible solution. To date, small-scale nutria management and eradication efforts have been somewhat effective temporarily, but a more permanent solution requires that the situation be addressed on a much larger scale. Due to the long period of time since the initial nutria introduction, the extent of current regional nutria populations, and the changing climate patterns, a long-term effort will likely be required to effectively address the regional nutria issue. The most immediate management need is to develop an official regional nutria management plan with the focus of greatly reducing the amount of damage being caused by this invasive rodent and preventing further population growth and expansion. The effectiveness of initial management efforts will shed light on how to adapt management strategies in the future and whether or not regional eradication is a feasible option. Continued nutria research and the development of coordinated management efforts at the regional scale are vital in order to bring the current regional nutria problem under control. The CLR at PSU has developed initial recommendations to help guide the process of determining how to most effectively manage nutria in the Pacific Northwest. First and foremost, funding sources for continued work on the regional nutria problem must be found. Once funding is secured, the development of an official nutria regional management plan is crucial. Priorities connected with the management plan would include creating an early detection rapid response plan, identifying best management practices, initiating a pilot eradication program, and identifying priority research needs. Potential research studies include a long-term pilot eradication project at the watershed level, relationships between climate change and regional nutria dispersal, and the dynamics of nutria-muskrat interactions. It is also evident that further coordination between local, state, and federal agencies is necessary to delegate responsibilities and keep all parties updated. The creation of a central regional database and appropriate agency protocols could be used to collect information about nutria damage and associated economic impacts. Current laws and regulations pertaining to nutria should be enforced and possibly updated so that Oregon and Washington laws are uniform. Finally, it is important to inform the public about current nutria issues and utilize resources the general public can potentially provide. Title: Report on Nutria Management and Research in the Pacific Northwest Author: Sheffels, Trevor Robert, Sytsma, Mark Year: 2007 The nutria (Myocastor coypus) is a large semi-aquatic mammal native to South America that has been introduced to numerous countries around the world, primarily for fur farming. Nutria were introduced in Oregon and Washington in the 1930s, and feral populations were documented in 1943. Populations are known to be expanding in both Oregon and Washington, and regional nutria damage and nuisance complaints have increased in recent years. Most of the extensive damage caused by nutria is a direct result of feeding and burrowing, but nutria are also capable of transporting parasites and pathogens transmittable to humans, livestock, and pets. Although several past regional and local nutria research and management projects have been identified, there is a shortage of nutria information from the Pacific Northwest considering that the species has been present in the region for approximately seventy years. The Center for Lakes and Reservoirs (CLR) at Portland State University (PSU), in partnership with several local, state, and federal agencies, has taken the lead in addressing the regional nutria problem. Activities completed to date include a regional nutria management workshop, the ongoing development of a regional nutria distribution/density map, and a research project to analyze the impact of nutria herbivory on regional riparian wetland habitat restoration projects. In addition, the CLR at PSU is participating in the development of the national Aquatic Nuisance Species Task Force nutria management plan. This initial assessment of the current nutria situation in the Pacific Northwest conducted by the CLR at PSU has revealed that regional nutria problems are more extensive than previously realized. Nutria sightings have now been confirmed from the Canadian border to near the southern border of Oregon, confirming a larger range than was previously known. It was also found that the main nutria issues in the Pacific Northwest differ from the main nutria issues in Louisiana and Maryland. For example, the most significant category of regional nutria damage appears to be the destruction of water control structures and associated erosion caused by nutria burrowing, as opposed to nutria herbivory damage in Louisiana and Maryland. Another unique situation in the Pacific Northwest is the high density of nutria populations in urban areas, increasing the potential for conflicts between nutria and humans. Nutria attacks have been reported in isolated cases, and nutria are rodents that carry a variety of transmittable parasites and pathogens. It has also been confirmed that significant regional nutria herbivory damage does occur at some locations. Fortunately, it has become evident through the course of this assessment that a strong regional interest to address the nutria problem exists. A wide variety of agencies and organizations across the region are being negatively impacted by nutria, and these entities are ready to move forward to develop a feasible solution. To date, small-scale nutria management and eradication efforts have been somewhat effective temporarily, but a more permanent solution requires that the situation be addressed on a much larger scale. Due to the long period of time since the initial nutria introduction, the extent of current regional nutria populations, and the changing climate patterns, a long-term effort will likely be required to effectively address the regional nutria issue. The most immediate management need is to develop an official regional nutria management plan with the focus of greatly reducing the amount of damage being caused by this invasive rodent and preventing further population growth and expansion. The effectiveness of initial management efforts will shed light on how to adapt management strategies in the future and whether or not regional eradication is a feasible option. Continued nutria research and the development of coordinated management efforts at the regional scale are vital in order to bring the current regional nutria problem under control. The CLR at PSU has developed initial recommendations to help guide the process of determining how to most effectively manage nutria in the Pacific Northwest. First and foremost, funding sources for continued work on the regional nutria problem must be found. Once funding is secured, the development of an official nutria regional management plan is crucial. Priorities connected with the management plan would include creating an early detection rapid response plan, identifying best management practices, initiating a pilot eradication program, and identifying priority research needs. Potential research studies include a long-term pilot eradication project at the watershed level, relationships between climate change and regional nutria dispersal, and the dynamics of nutria-muskrat interactions. It is also evident that further coordination between local, state, and federal agencies is necessary to delegate responsibilities and keep all parties updated. The creation of a central regional database and appropriate agency protocols could be used to collect information about nutria damage and associated economic impacts. Current laws and regulations pertaining to nutria should be enforced and possibly updated so that Oregon and Washington laws are uniform. Finally, it is important to inform the public about current nutria issues and utilize resources the general public can potentially provide. Close

• 10. [Article] Modeling the effectiveness of riparian restoration on stream shading in the Clackamas River Basin

  Rivers and streams within the Clackamas River Basin are not currently meeting water quality standards in terms of temperature. The Clackamas River Basin Council (CRBC) designed a restoration program to ...

  Citation × Citation Citation Abstract Copy Title: Modeling the effectiveness of riparian restoration on stream shading in the Clackamas River Basin Author: Barksdale, Rachel Year: 2017 Rivers and streams within the Clackamas River Basin are not currently meeting water quality standards in terms of temperature. The Clackamas River Basin Council (CRBC) designed a restoration program to address the thermal loading on behalf of Portland General Electric (PGE) in which native trees and shrubs are planted along streams to restore riparian canopy cover. Solar radiation can be blocked by restoring canopy cover and is an effective way to provide shade, as well as providing ancillary environmental benefits such as enhanced wildlife habitat and erosion control. Stream and vegetation data were collected at nine sites to model the increase in shade from the restoration plantings. Using DEQ’s Shade-a-lator model, shade was predicted in future scenarios at 10, 20, and 50 years compared to the current baseline condition. Modeling results suggest increases in shade at each site, which will help to mitigate excessive thermal inputs. The predicted scenarios provide a framework to evaluate the effectiveness of CRBC’s restoration program. Title: Modeling the effectiveness of riparian restoration on stream shading in the Clackamas River Basin Author: Barksdale, Rachel Year: 2017 Rivers and streams within the Clackamas River Basin are not currently meeting water quality standards in terms of temperature. The Clackamas River Basin Council (CRBC) designed a restoration program to address the thermal loading on behalf of Portland General Electric (PGE) in which native trees and shrubs are planted along streams to restore riparian canopy cover. Solar radiation can be blocked by restoring canopy cover and is an effective way to provide shade, as well as providing ancillary environmental benefits such as enhanced wildlife habitat and erosion control. Stream and vegetation data were collected at nine sites to model the increase in shade from the restoration plantings. Using DEQ’s Shade-a-lator model, shade was predicted in future scenarios at 10, 20, and 50 years compared to the current baseline condition. Modeling results suggest increases in shade at each site, which will help to mitigate excessive thermal inputs. The predicted scenarios provide a framework to evaluate the effectiveness of CRBC’s restoration program. Close