<p>The Golden-winged Warbler (Vermivora chrysoptera) is an imperiled songbird that breeds in early-successional plant communities of eastern North America. Conservation efforts on the breeding grounds have become a priority because population declines are understood to be driven chiefly by the loss/degradation of breeding habitat. Although the species is known to use a variety of upland and wetland habitat types, most previous research on the species has been conducted solely in uplands. I studied Golden-winged Warbler use and habitat characteristics in the Poconos region of Pennsylvania. Density estimates suggest that both timber harvests and wetlands support similar densities of Golden-winged Warblers. Microhabitat occupancy models revealed that those wetlands I surveyed with high densities of 1-2 m tall shrubs (>2x as many shrubs) supported fewer Golden-winged Warblers whereas wetlands with more saplings (>2x as many saplings) and sedge cover (~1.3x as many sedge observations) supported more warblers. Finally, I found that macro-scale habitat variables that I quantified did not predict species occupancy of wetlands, likely due to the homogeneous nature of the study area. My study suggests that both wetlands and timber harvests have similar capacity to support Golden-winged Warblers. Further, wetlands in the Poconos should be evaluated at the microhabitat-scale for vegetative attributes that meet Golden-winged Warbler habitat requirements, rather than at the macro-habitat scale.

<p> Sea-level rise is a concern for the future of coastal marsh obligate species such as the Clapper Rail (<i>Rallus crepitans</i>). Clapper Rails possess the potential to indicate changes to marsh ecological state due to population variation related to habitat features exhibited in previous study. Estimates for Clapper Rail survival are among the key missing parameters to create predictive models for Clapper Rail populations. I estimated Clapper Rail survival using data collected from six automated telemetry towers located in two Mississippi marshes. Thirty adult rails were harnessed with radio transmitters around telemetry towers to provide evidence of a rail&rsquo;s status, alive or dead. Using survival estimates in conjunction with existing empirical data, I created an individual-based model that incorporated existing Sea-level Affecting Marsh Models, which predict changing land cover. These models showed that Clapper Rails will likely persist, though at decreased populations, through changes in habitat due to sea-level rise.</p><p>

<p> Rails (Family: Rallidae) are among the least studied birds in North America, in large part due to their elusive nature. As a wetland-dependent species, understanding the timing of their migration and their habitat needs during migration is especially important since management needs to be timed to balance the needs of many species. I developed and verified a new distance sampling based nocturnal ATV spotlight survey because traditional call-broadcast surveys are not effective during autumn migration because of the drop off in call rate after the breeding season. These surveys allow us to ask point-level questions about what habitats rails select during migration and how it changes over time. Through these standardized surveys from 2012-2016 across 11 public properties in Missouri, USA, I documented the migratory timing and habitat use of migratory rails. Sora (Porzana carolina) have a wide migratory window, beginning in early August and continuing through the end of October with a peak in late September. Virginia Rail (Rallus limicola) and Yellow Rails (Coturnicops noveboracensis) have shorter migratory periods, from late September through the end of October. Rails, especially Sora, migrate earlier than waterfowl, which can create a mismatch of habitat needs. We performed a 3 year experiment to examine the response of Sora and waterfowl to early autumn wetland flooding. Sora responded positively without a negative impact on waterfowl. I used monitoring data to create species distribution models to inform estimates of migratory connectivity for all three species using stable hydrogen isotopes. Sora and Yellow Rails were estimated to migrate generally north-south, with Virginia Rails coming from a wider east-west range. Through better understanding the migratory connectivity, timing and habitat use of rails in the autumn I provide a foundation to inform conservation and management of these fascinating and elusive birds. We provide a description of all variables used (Appendix II), GPS data of survey tracks and detection points (Appendix III), data sets of bird observation points, survey data, and vegetation information (Appendix IV), data sets of stable hydrogen isotope data (Appendix V), data sets of species distribution models (Appendix VI).</p>

<p> Conservation of endangered Indiana bats (<i>Myotis sodalis</i>) requires knowledge of regional habitat use patterns. I radio-tracked Indiana bats to roosts and foraging areas to document summer habitat use. Sexes selected different roost trees: reproductive females selected maples, whereas males selected elms and other species, but did not use maples. Distribution models based on environmental correlates revealed that soil series was the strongest contributor to niche models. Females selected roosts in silt loams; males selected roosts in muck, silt loam and fine sandy loams. All bats foraged in habitats over fine sandy and gravelly loams. Male roosts and female foraging areas were found near local water body elevations, though males foraged at higher elevations. The niche models suggest that sexes roost and forage separately, but that ranges for these activities overlap. My findings identify habitats selected by Indiana bats thereby enabling more effective conservation for this endangered species.</p><p>

Virtually any person exposed to American movies or television has likely heard the call of a common loon (Gavia immer). Its use as a sound prop has become ubiquitous in any scene related to the outdoors or the wilderness, even if the area filmed is in no way related to true loon habitat. The reason behind this is that the common loon and its haunting cries have come to symbolize the great outdoors. The sound of their call is meant to make the audience feel like the scene they are watching is in a remote area, far from the trappings of civilization, and, in our experience, it works. Hollywood has picked up on a sentiment held by many outdoor enthusiasts and is using it successfully. Unfortunately the southern range of the common loon is contracting and concern has been expressed over disturbance to breeding pairs by human activities, such as shoreline development, boating, and water-skiing, as well as possible contamination with lead, mercury, and other pollutants. If this alarming trend continues it may be that Hollywood movies will be the last place where a loon call can be heard in the United States. In the following chapters I will explore various threats to common loon populations. I will start in Chapter 1 with an evaluation of the potential effects of global warming on common loons within the North American breeding range. In Chapter 2 I review the available literature on wildlife disturbance and discuss some of the shortcomings and future research needs. I then go to a finer scale of study in Chapter 3 with a spatial analysis of disturbance factors and the effects on breeding common loons at Lake Umbagog National Wildlife Refuge. From there, in Chapter 4, I proceed to an analysis of specific behavioral responses exhibited by common loons in response to observed and experimentally imposed disturbance events. Finally, in Chapters 5 and 6, I briefly describe two natural disturbance events observed during our research, an immature bald eagle (Haliaeetus leucocephalus) predating a loon nest, and a loon nest defense of an aggressive American mink ( Nevison vison).

The world’s biodiversity is concentrated in tropical ecosystems, yet tropical forests are being converted for agriculture at a rapid rate. I evaluated the potential of an alternative coffee production system known as Integrated Open Canopy (IOC) to contribute to avian conservation. This study was conducted from 2005–2010 in the Cordillera de Tilarán, Costa Rica. My results indicate that species richness of forest-dependent birds was significantly higher in IOC farms than in shade coffee farms, and was comparable to secondary forest sites. There was no difference in species richness of Neotropical-Nearctic migrants between IOC and shade coffee farms. Overall similarity was higher between IOC farms and primary forest than between shade coffee farms and primary forest. The golden-winged warbler (Vermivora chrysoptera) is a declining Neotropical-Nearctic migrant bird, yet little is known about its non-breeding season ecology and demographics. I found that golden-winged warbler abundance was highest at intermediate precipitation levels found at middle elevations (1000–1200 m) of the Pacific slope, but they were absent from the dry forests at lower elevations on the Pacific slope. Abundance peaked in forests with canopy heights of 22 m, and was positively related to the quantity of hanging dead leaves. Radio-telemetry data indicated that golden-winged warblers used microhabitat features characteristic of disturbance more frequently than expected by chance. Selection of these microhabitat features was related to their highly specialized dead-leaf foraging behavior, which may also have contributed to their high degrees of site fidelity, mixed-species flock attendance, and territoriality. These behaviors have important conservation implications because they constrain density, and thus could affect carrying capacity. Population dynamics were characterized by estimating plot-level and individual-level apparent survival and recruitment rates within and among non-breeding seasons. Both levels of analysis suggested that recruitment was too low to offset mortalities within this study area. This study indicates that increasing forest cover in tropical agricultural landscapes may be the most effective way of providing habitat for bird species of high conservation concern, including the golden-winged warbler. Integrated open canopy coffee production is one option for achieving this goal because it provides a financial incentive to protect or restore forest.

<p> Interactions between animal populations and their environment form the foundation of wildlife management, and provision of resources that enhance fitness produce effectual management. Hunting is a selective force that shapes behavior and other adaptations of harvested species and may subsequently impact diel habitat use. Moreover, linking habitat use to biological outcomes, such as survival, is needed to evidence habitat suitability because of equivocal relations among population density, habitat correlations, or energy availability to population dynamics. The mallard (<i>Anas platyrhynchos</i>) is among the most coveted and harvested waterfowl in North America and is a migratory species of ecological, economic, and social importance. The Mississippi Alluvial Valley (MAV) is an ancestral and continentally important wintering area for North American mallards despite significant anthropogenic wetland transformation. Through targeted objectives and consequence of soil and water conservation, financial assistance programs have expanded waterfowl habitat on private lands in Mississippi. I radiomarked 265 female mallards and tracked their diel habitat use in winters 2010-2015 to evaluate objectives related to their wintering ecology in the MAV of Mississippi. Specifically, I investigated whether waterfowl hunting influenced use of some habitats during hunting season, the effectiveness of financial assistance programs in providing habitat, and habitat suitability through habitat specific survival rates. Females made greatest use of forested and emergent wetlands diurnally and emergent wetlands and flooded cropland at night. Results suggested that mallards did not avoid flooded cropland or emergent wetlands diurnally during hunting season, but conclusions were complicated by significant use of inviolate sanctuaries. Mallards used numerous incentivized conservation program wetlands, but use was less than public and privately managed wetlands. Among conservation programs, those with large enrollment and a focus on restoration (i.e., Wetlands Reserve Program) were most used by mallards. Apparent survival was independent of diurnal habitat use suggesting that mallards use of wetland complexes leads to their winter survival. Restoration of forested wetlands should be a management focus and easement programs provide such inroads on private lands. Public wetlands are an important source of habitat and inviolate sanctuary should be considered where waterfowl hunting is a predominate activity.</p><p>

Biodiversity monitoring and predictions of species occurrence are essential to develop outcome-oriented conservation management plans for endangered species and assess their success over time. To assess distribution and patterns of habitat use of large mammal assemblages in Thailand, with a focus on the endangered dhole (Cuon alpinus), I first implemented a long-term camera-trapping project carried out with park rangers from October 2003 through October 2007 in Khao Yai National Park. This project was extremely successful and may serve as a regional model for wildlife conservation. I found significantly lower relative abundance indices for carnivore species, and collectively for all mammals compared to data obtained in 1999–2000, suggesting population declines resulting from increased human activity. I integrated this data into maximum entropy modeling (Maxent) to further evaluate whether ranger stations reduced poaching activity and increased wildlife diversity and abundances. I then conducted a focused camera trap survey from January 2008 through February 2010 in Khao Ang Rue Nai Wildlife Sanctuary to gather critical baseline information on dholes, one of the predator species that seemed to have declined over time and that is exposed to continued pressure from humans. Additionally, I led a collaborative effort with other colleagues in the field to collate and integrate camera trap data from 15 protected areas to build a country-wide habitat suitability map for dholes, other predators, and their major prey species. The predicted presence probability for sambar (Rusa unicolor) and leopards (Panthera pardus) were the most important variables in predicting dhole presence countrywide. Based on my experience from these different field ecological surveys and endeavors, it became clear that local people's beliefs may have a strong influence on dhole management and conservation. Thus, I conducted villager interview surveys to identify local attitudes towards dholes, document the status of dholes in wildlife sanctuaries adjacent to Cambodia, and determine the best approach to improve local support for dhole conservation before proceeding with further field studies of the species in Thailand. A photograph of a dhole was correctly identified by only 20% of the respondents. My studies provide evidence that some protected areas in Thailand continue to support a diversity of carnivore speices of conservation concern, including clouded leopards (Neofelis nebulosa), dholes, and small felids. However, dholes' impact on prey populations may be increasing as tiger (Panthera tigris) and leopards are extripated from protected areas. The next step in dhole conservation is to estimate the size and stability of their fragmented populations and also focus on maintaining adequate prey bases that would support both large felids and dholes.

I studied aspects of fisher (Martes pennanti) population ecology on the Hoopa Valley Indian Reservation in northern California to fill critical information gaps relative to timber management and its effect on the status of fishers, a candidate for listing under the U.S. Endangered Species Act. A decline in mark-resight density estimates of fishers from 1998 (52/100 km2; 95% CI = 43–64) to 2005 (14/100 km2; 13–16) was likely due to changes in prey habitat suitability, increased predation pressure, and/or disease. The decline was also indicated by catch-per-unit effort indices, but not by camera station or track-plate station indices. Colleagues and I developed and tested methods of collecting mark-recapture data using genetic marking, passive integrated transponder (PIT) tag technology, and digital, passive-infrared photography that could be used in a demographic monitoring protocol. The comparatively high cost of PIT tag reading equipment and genetic analyses makes the use these methods dramatically more expensive and yield less demographic data compared to using a traditional mark-recapture approach using only live trapping. By monitoring 40 radio-marked, breeding age (≥ 2 years old) females during 2005–2011, we found that 87% exhibited denning behavior and 65% of these were successful in weaning at least one kit (mean = 1.9). Of 14 kits radio-marked in their first fall, 3 died prior to dispersal, 3 lost collars, and the other 8 established home ranges 0.8–18.0 km away from natal areas. Nipple size (width multiplied by height of the largest anterior nipple), evaluated as a predictive index of female fisher reproductive success, differed among nonbreeders vs. attempted and current breeders. A predictive index for use in assigning reproductive status to females with unknown reproductive histories had an overall correct classification rate of 81% and a chance-corrected measure of prediction of 69.5%. These results illustrate the value in establishing long-term, accurate programs to monitor populations of imperiled species which strive to determine cause and affect relationships to changes in populations and ultimately, modeling habitat fitness. The relatively low reproductive rate of female fishers brings into question the species ability to demographically respond to increased rates of juvenile and adult mortality with increased reproduction and/or survival. The limited dispersal capability of juvenile fishers restricts ability to rescue vanishing local populations from extirpation, re-inhabit landscapes from which they were previously extirpated, and establish the functional connectivity of metapopulations.