Ecology and Evolutionary Biology Commons^™

Population Demography Of A Neotropical Migratory Songbird In The Face Of A Changing Climate, Adele Balmer

Theses and Dissertations

This dissertation investigates the population dynamics and demographic trends of the Prothonotary Warbler (Protonotaria citrea), a migratory songbird that breeds in North America during the spring and summer and overwinters in Central and northern South America. The primary objective of this dissertation is to examine the combined implications of variation in weather and individual traits on demographic traits and to project the effects of climate change on population trajectories of the Prothonotary Warbler.

The analyses conducted in this dissertation centered around female Prothonotary Warblers; however, visual identification of a nestling’s sex is impossible in most altricial bird species, …

Insights Into The Conservation Of The Rare Perennial Herb, Astragalus Applegatei, Sean Stewart

Cal Poly Humboldt theses and projects

As anthropogenic activities expand, conservation of rare and endangered species is critical to reduce extinction risks. Collecting and analyzing demographic data can assist in the development of conservation strategies and can help evaluate the success of existing strategies. In this study, I built integral projection models from five years of demographic data and conducted a population viability analysis on four populations of the rare perennial herb, Astragalus applegatei, to inform conservation decisions. I also assessed how planting A. applegatei seedlings might contribute to the growth of an extant population. I found that one population was already below the extinction …

Identifying Habitat Suitability And Connectivity For Roosevelt Elk (Cervus Canadensis Roosevelti) On The North Coast Of California, Ashley Ann Harper

Cal Poly Humboldt theses and projects

As human development continues to expand, wildlife managers are faced with problems arising from human-wildlife conflict. To address conflict, it is vital to identify how animals view the landscape and move across areas of differing land use. On the North Coast of California, Roosevelt elk (Cervus canadensis roosevelti) are widely considered to be a valuable resource but are viewed by some as a nuisance due to economic losses caused by property damage. The aim of this study was to identify suitable habitat and movement corridors for Roosevelt elk across Humboldt and Del Norte counties in northern California. Suitable …

Carnivore And Ungulate Occurrence In A Fire-Prone Region, Sara J. Moriarty-Graves

Cal Poly Humboldt theses and projects

Increasing fire size and severity in the western United States causes changes to ecosystems, species’ habitat use, and interspecific interactions. Wide-ranging carnivore and ungulate mammalian species and their interactions may be influenced by an increase in fire activity in northern California. Depending on the fire characteristics, ungulates may benefit from burned habitat due to an increase in forage availability, while carnivore species may be differentially impacted, but ultimately driven by bottom-up processes from a shift in prey availability. I used a three-step approach to estimate the single-species occupancy of four large mammal species: mountain lion (Puma concolor), coyote …

Long Term Changes In Aquaculture Influence Migration, Regional Abundance, And Distribution Of An Avian Species, Paul C. Burr, Brian S. Dorr, Jimmy L. Avery, Garrett M. Street, Bronson K. Strickland

United States Department of Agriculture Wildlife Services: Staff Publications

Agricultural development has been causing changes to the environment and the abundance and distribution of avian species. Agriculture is dynamic with changes in products occurring at large scales over relatively short time periods. The catfish aquaculture industry is one such agriculture industry that has undergone dramatic changes over the last 25 years. The double-crested cormorant (Nannopterum auritum) is a piscivorous bird that has an extensive history with the aquaculture industry of Mississippi due to its depredation of cultured catfish. A large-scale monitoring program began in 1989 to estimate the abundance and location of cormorants at every known roost in the …

The Past, Present, And Future Of Equine Science, Sarah H. White-Springer, Jason E. Bruemmer, Robert J. Coleman

United States Department of Agriculture Wildlife Services: Staff Publications

A core group of 27 equine nutritionists and physiologists joined together in the late 1960s to formally address and enhance the direction of equine research, creating the Equine Nutrition and Physiology Soci- ety. In 2003, that growing society transformed into the Equine Science Society, which now serves as the preeminent, internationally recognized scientific equine organization. In recent years, it has been appre- ciated that equine science encompasses a wide range of focus areas, including exercise science, nutrition, genetics, reproductive physiology, teaching and extension, production and management, and mix of other specialties, qualified as biosciences. Additionally, trainees are highly valued in …

Using Drones To Detect And Quantify Wild Pig Damage And Yield Loss In Corn Fields Throughout Plant Growth Stages, Bethany A. Friesenhahn, Lori D. Massey, Randy W. Deyoung, Michael J. Cherry, Justin W. Fischer, Nathan P. Snow, Kurt C. Vercauteren, Humberto L. Perotto‐Baldivieso

United States Department of Agriculture Wildlife Services: Staff Publications

Presently, there are an estimated 6.9 million wild pigs (Sus scrofa) in the U.S., which cause over US$1 billion in damage to agriculture, environmental impacts, and control costs. However, estimates of damage have varied widely, creating a need for standardized monitoring and a method to accurately estimate the economic costs of direct wild pig damage to agriculture. The goal of our study was to integrate remotely sensed imagery from drones and crop harvest data to quantify wild pig damage in corn fields. We used drones with natural color (red, green, blue) cameras to monitor corn fields at different …

The Impact Of The Covid‑19 Pandemic On Wildlife–Aircraft Collisions At Us Airports, Levi Altringer, Sophie C. Mckee, Jason D. Kougher, Michael J. Begier, Stephanie A. Shwiff

United States Department of Agriculture Wildlife Services: Staff Publications

Exploiting unprecedented reductions in aircraft movements caused by the COVID-19 pandemic, we investigated the relationship between air traffic volume and the frequency of wildlife-aircraft collisions, or wildlife strikes, at the 50 largest airports in the United States. During the COVID- 19 months of 2020 (March–December), both air traffic volume and the absolute number of wildlife strikes were reduced. The net effect of these two movements, however, was an increase in the wildlife strike rate from May 2020–September 2020. This increase was found to be most pronounced at airports with larger relative declines in air traffic volume. We concluded that the …

Echinococcus Species Infections Among Wild Canids In Pennsylvania, Usa, Kayla Garrett, Justin Brown, Ryan K. A. Grunert, Jonathan Hunte, Mark G. Ruder, Kyle Van Why, Michael J. Yabsley, Christopher A. Cleveland

United States Department of Agriculture Wildlife Services: Staff Publications

Echinococcus species are zoonotic tapeworms that can impact the health of wildlife, domestic animals, livestock, and humans. Two species of interest in North America are Echinococcus multilocularis and Echinococcus canadensis (Echinococcus granulosus sensu lato). The primary wildlife definitive hosts for E. multilocularis and E. canadensis are similar, including red foxes (Vulpes vulpes), gray foxes (Urocyon cinereoargenteus), coyotes (Canis latrans), and wolves (Canis lupus). These two Echinococcus spp. use different intermediate hosts, including small mammals for E. multilocularis and artiodactylids for E. canadensis. Although historically absent from …

Turkey Vulture Survival Is Reduced In Areas Of Greater Road Density, Adrián Naveda-Rodríguez, Keith L. Bildstein, David R. Barber, Jean-François Therrien, Michael L. Avery, Bryan M. Kluever, Scott A. Rush, Francisco J. Vilella

United States Department of Agriculture Wildlife Services: Staff Publications

The demography of, and factors that influence these metrics, are largely unknown for most vultures in the Americas. Survivorship of turkey vultures (Cathartes aura) may be influenced by landscape heterogeneity and human disturbance. We quantified the effects of landscape composition (Shannon’s diversity index) and configuration (contagion, edge density, and largest patch index), and human disturbance (road density) on the annual and seasonal survival probabilities of the three North American breeding populations (western, central, and eastern) of turkey vultures that spend the nonbreeding season in the southeastern portion of the Nearctic and the northern Neotropics during a 17-year period. …

Sympatric Carnivores And Vegetation Structure Influence The Distribution And Abundance Of Humboldt Martens In Northern California, Erika L. Anderson

Cal Poly Humboldt theses and projects

The Humboldt marten (Martes caurina humboldtensis) is a species facing conservation concern in Oregon and California. Historical populations were subjected to unregulated fur trapping and timber harvest throughout the late 19^th and early 20^th centuries leading to a 90% decline in their distribution. As such, the Humboldt marten is listed as a state endangered species in California, and the analogous ‘coastal marten’ is listed as federally threatened under the Endangered Species Act and classified as a Species of Greatest Conservation Need in Oregon and California. Contemporary populations are small, and isolated, and threatened by habitat loss …

Table Of Contents

Human–Wildlife Interactions

This is the table of contents.

Do Trap-Neuter-Return (Tnr) Practices Contribute To Human–Coyote Conflicts In Southern California?, Danielle M. Bucklin, Jennifer M. Shedden, Niamh M. Quinn, Robert Cummings, Paul Stapp

Human–Wildlife Interactions

One possible contributor to the unusually high number of conflicts between coyotes (Canis latrans) and people in urban southern California, USA, may be the abundance of free-roaming domestic cats (Felis catus; cats) subsidized by feeding and augmented by trap-neuter-return (TNR) programs. To determine if coyotes regularly prey on and consume cats, we combined visual and molecular-genetic approaches to identify prey items in stomachs of 311 coyotes from Los Angeles County and Orange County, provided to the South Coast Research and Extension Center, in Irvine, California, between June 2015 and December 2018. We detected cat remains in …

Predicting Mountain Lion Resource Selection And Abundance In North America, William Connor O'Malley

Graduate Student Theses, Dissertations, & Professional Papers

The relationship between habitat quality and density is well documented in lower trophic levels but to what extent it can be extended to higher trophic levels is unknown. I tested the relationship between habitat quality, home-range size and density using a wide-ranging, well-studied, top carnivore, the mountain lion (Puma concolor). First, I created a second-order resource selection function (RSF) for mountain lions in their current North American range using GPS collar data from 476 individuals in 20 study sites and remotely-sensed landscape data. I used the RSF and home range estimates derived from collared animals to quantify mountain …

Individual And Population Responses To Hydrologic Variability In A Headwater Stream Salamander, Madaline Cochrane

Graduate Student Theses, Dissertations, & Professional Papers

Understanding how organisms respond to environmental variability is a central goal in ecology – a goal made even more pressing by the herculean challenge global climate change presents to all organisms. Climate change is increasing the frequency and intensity of floods and droughts, which will likely have disproportionate effects on freshwater organisms. Many stream-associated species have multi-stage life histories. However, we lack an empirical understanding of life history and movement responses of these organisms to hydrologic disturbances, and how these responses may influence demographic rates. In my dissertation, I used a combination of growth, developmental, movement, and demographic data to …

Western Gulls’ (Larus Occidentalis) Reproductive And Behavioral Responses To Human Disturbance, Lilamarie 'Asta Bowen

Cal Poly Humboldt theses and projects

Human disturbances can negatively affect wildlife by causing stress, altering behavior, or even impacting populations through changes in survival or productivity. Colonial-nesting seabirds are of particular concern due to population declines and their gregarious and conspicuous nature, which may attract human visitors. However, the effects of nearby human activities, though frequently negative, could be neutral or even positive through phenomena like habituation to human activities or subsidization by human-supplied food sources. In this observational study, I evaluated relative support for three hypotheses which may explain how Western Gulls are impacted by human activity: disturbance, habituation, and subsidization. I investigated this …

Riverine Fish Population Dynamics, Aaron P. Muehler

Graduate Theses/Dissertations

Dynamic rate functions (i.e., recruitment, growth, mortality) structure fish populations and are subject to latitudinal differences. These latitudinal differences are likely reflective of climatic variation and may result in spatially distinct populations that must be managed independently, especially in large systems such as the Upper Mississippi River system (UMRS). In order to successfully manage this system, an understanding of what drives these populations is required. The UMRS is useful for this investigation as it crosses 10° temperate latitude with widespread fish species found throughout. In this study, I investigated the synergistic relationship between latitude, vital rates, and abundance. Species were …

Quantitative Song Variety In Relation To Genotype In A Hybridizing Chickadee Population, Shelby Madison Palmer

Graduate Theses/Dissertations

The Black-capped chickadee (Poecile atricapillus) and Carolina chickadee (P. carolinensis) are North American songbird species that hybridize in a narrow contact zone stretching latitudinally from New Jersey to Kansas, USA. The association between genetic ancestry and song type in this hybrid zone has been studied independently several times and found to be minimal or absent, likely due to the influence of cultural transmission on learned song in the oscine passerine clade to which the chickadees belong. Despite this, the song of both species remains remarkably distinct in allopatry, suggesting a genetic constraint on certain qualities of …

The Role Of Interspecific Competition In The Range Collapse Of A Songbird After Rapid Range Expansion, Zachary H. Vickers

Graduate Theses/Dissertations

There is a wealth of evidence demonstrating interspecific competition in birds, but often this evidence is localized and may or may not entirely explain range dynamics over large geographic extents. Bewick’s Wrens (Thrymanes bewickii) and House Wrens (Troglodytes aedon) are small passerine birds of the family Troglodytidae. Previous experimental evidence has demonstrated that Bewick’s Wrens suffer from asymmetric interference competition from House Wrens in Kansas, and this evidence has been cited as the likely reason for the historically recent range collapse of the Bewick’s Wren. However, I argue that localized experimental evidence is insufficient to explain abundance trends over large …

Integrating Robotics Into Wildlife Conservation: Testing Improvements To Predator Deterrents Through Movement, Stewart W. Breck, Jeffrey T. Schultz, David Prause, Cameron Krebs, Anthony J. Giordano, Byron Boots

United States Department of Agriculture Wildlife Services: Staff Publications

Background Agricultural and pastoral landscapes can provide important habitat for wildlife conservation, but sharing these landscapes with wildlife can create conflict that is costly and requires managing. Livestock predation is a good example of the challenges involving coexistence with wildlife across shared landscapes. Integrating new technology into agricultural practices could help minimize human-wildlife conflict. In this study, we used concepts from the fields of robotics (i.e., automated movement and adaptiveness) and agricultural practices (i.e., managing livestock risk to predation) to explore how integration of these concepts could aid the development of more effective predator deterrents.

Methods …

Assessment Of Habitat‐Specific Competition For Oral Rabies Vaccine Baits Between Raccoons And Opossums, James L. Helton, Jacob E. Hill, David A. Bernasconi, Wesley C. Dixon, Richard B. Chipman, Amy Gilbert, James C. Beasley, Guha Dharmarajan, Olin E. Rhodes Jr.

United States Department of Agriculture Wildlife Services: Staff Publications

Throughout the eastern United States, the National Rabies Management Program (NRMP) distributes oral rabies vaccine (ORV) baits to manage rabies virus circulation in raccoon (Procyon lotor) populations. The consumption of vaccine baits by non‐target species including Virginia opossums (Didelphis virginiana) may reduce the effectiveness of ORV programs, but competition for baits remains poorly quantified in many areas of the southeastern United States. We distributed placebo ORV baits injected with a biomarker across 4 land cover types (bottomland hardwood, upland pine, riparian, isolated wetland) on the Savannah River Site in South Carolina, USA, 2017–2019. We then trapped …

Producers’ Perceptions Of Large Carnivores And Nonlethal Methods To Protect Livestock From Depredation: Findings From A Multistate Federal Initiative, Keith M. Carlisle, Hailey E. Ellis, Colorado State University, Alan D. Bright

United States Department of Agriculture Wildlife Services: Staff Publications

We examined livestock producers’ perceptions of wolves, grizzly bears, black bears, and mountain lions, as well as their experiences with using nonlethal methods to protect livestock from depredation. All producers in the study received nonlethal predator management assistance in 2020 from USDA-APHIS-Wildlife Services (“WS”) pursuant to a federally funded initiative focused on the use of nonlethal methods to protect livestock. Such methods included assistance from range riders (i.e., individuals who monitor livestock and carnivores), fladry (i.e., flags hung from rope that serve as a repellent), and other audio/visual deterrents (e.g., Foxlights). The producers did not specifically seek nonlethal assistance from …

Genomic Analyses Of Gray Fox Lineages Suggest Ancient Divergence And Secondary Contact In The Southern Great Plains, Elizabeth M. Kierepka, Sophie Preckler-Quisquater, Dawn M. Reding, Antoinette Piaggio, Seth P.D. Riley, Benjamin N. Sacks

United States Department of Agriculture Wildlife Services: Staff Publications

The gray fox (Urocyon cinereoargenteus) lineage diverged from all other extant canids at their most basal node and is restricted to the Americas. Previous mitochondrial analysis from coastal populations identified deeply divergent (up to 1 Mya) eastern and western lineages that predate most intraspecific splits in carnivores. We conducted genotyping by sequencing and mitochondrial analysis on gray foxes sampled across North America to determine geographic concordance between nuclear and mitochondrial contact zones and divergence times. We also estimated the admixture within the contact zone between eastern and western gray foxes based on nuclear DNA. Both datasets confirmed that …

A Social Network Analysis Of Actors Involved In Wild Pig (Sus Scrofa) Management In Missouri, Hailey E. Ellis, Meredith J. Grady, Lauren Jaebker, Alan D. Bright, Keith M. Carlisle

United States Department of Agriculture Wildlife Services: Staff Publications

Wild pigs (Sus scrofa) cause significant damage to agriculture and native ecosystems and can transmit diseases to animals and people. Management responses designed to reduce population numbers are needed to mitigate these threats. Identifying networks of key actors, including the ways in which they interact, is valuable for purposes of better understanding opportunities or constraints that generate or impede effective management responses. The goal of our study was to understand the network of organizations, and the personnel working within them, that were active in wild pig management, research, or policy initiatives in Missouri during 2018–2020 by 1) identifying …

Effects Of Corn Supplementation On Serum And Muscle Microrna Profiles In Horses, Clarissa Carver, Jason E. Bruemmer, Stephen Coleman, Gabriele Landolt, Tanja Hess

United States Department of Agriculture Wildlife Services: Staff Publications

Laminitis associated with equine metabolic syndrome causes significant economic losses in the equine industry. Diets high in non-structural carbohydrates (NSC) have been linked to insulin resistance and laminitis in horses. Nutrigenomic studies analyzing the interaction of diets high in NSCs and gene expression regulating endogenous microRNAs (miRNA) are rare. This study's objectives were to determine whether miRNAs from dietary corn can be detected in equine serum and muscle and its impacts on endogenous miRNA. Twelve mares were blocked by age, body condition score, and weight and assigned to a control (mixed legume grass hay diet) and a mixed legume hay …

Transmission Of Sars-Cov-2 In Free-Ranging White-Tailed Deer In The United States, Aijing Feng, Sarah Bevins, Jeff Chandler, Thomas J. Deliberto, Ria Ghai, Kristina Lantz, Julianna Lenoch, Adam Retchless, Susan A. Shriner, Cynthia Y. Tang, Suxiang Sue Tong, Mia Torchetti, Anna Uehara, Xiu-Feng Wan

United States Department of Agriculture Wildlife Services: Staff Publications

SARS-CoV-2 is a zoonotic virus with documented bi-directional transmission between people and animals. Transmission of SARS-CoV-2 from humans to free-ranging white-tailed deer (Odocoileus virginianus) poses a unique public health risk due to the potential for reservoir establishment where variantsmay persist and evolve. We collected 8,830 respiratory samples from free-ranging white-tailed deer across Washington, D.C. and 26 states in the United States between November 2021 and April 2022. We obtained 391 sequences and identified 34 Pango lineages including the Alpha, Gamma, Delta, and Omicron variants. Evolutionary analyses showed these white-tailed deer viruses originated fromat least 109 independent spillovers fromhumans,which resulted in …

H7n9 Influenza A Virus Transmission In A Multispecies Barnyard Model, Angela M. Bosco-Lauth, Anna Rodriguez, Rachel M. Maison, Stephanie M. Porter, J. Jeffrey Root

United States Department of Agriculture Wildlife Services: Staff Publications

Influenza A viruses are a diverse group of pathogens that have been responsible for millions of human and avian deaths throughout history. Here, we illustrate the transmission potential of H7N9 influenza A virus between Coturnix quail (Coturnix sp.), domestic ducks (Anas platyrhynchos domesticus), chickens (Gallus gallus domesticus), and house sparrows (Passer domesticus) co-housed in an artificial barnyard setting. In each of four replicates, individuals from a single species were infected with the virus. Quail shed virus orally and were a source of infection for both chickens and ducks. Infected chickens transmitted the virus to quail but not to ducks or …

Raccoon Rabies Control And Elimination In The Northeastern Usa And Southern Québec, Canada, Amy J. Davis, Marianne Gagnier, Ariane Massé, Kathleen M. Nelson, Jordona D. Kirby, Ryan Wallace, Xiaoyue Ma, Christine Fehlner-Gardiner, Richard B. Chipman, Amy Gilbert

United States Department of Agriculture Wildlife Services: Staff Publications

Rabies virus (RABV) is a deadly zoonosis that circulates in wild carnivore populations in North America. Intensive management within the USA and Canada has been conducted to control the spread of the raccoon (Procyon lotor) variant of RABV and work towards elimination. We examined RABV occurrence across the northeastern USA and southeastern Québec, Canada during 2008–2018 using a multi-method, dynamic occupancy model. Using a 10 km× 10 km grid overlaid on the landscape, we examined the probability that a grid cell was occupied with RABV and relationships with management activities (oral rabies vaccination (ORV) and trap-vaccinate-release efforts), habitat, neighbour effects …

Writing Statistical Methods For Ecologists, Amy J. Davis, Shannon Kay

United States Department of Agriculture Wildlife Services: Staff Publications

The Methods section is a key component of any ecology research publication containing detailed information on how the data were collected and analyzed. However, descriptions of which statistical methods were used and how they were applied can substantially vary and may not provide enough information for the analyses to be reproducible. Computational and statistical programming advances have allowed ecological researchers without a strong statistical or mathematical background to access and use increasingly complex statistical methods. Thus, statistical methods are written by and need to be accessible to researchers across a range of quantitative expertise. Poorly written Methods sections can incorrectly …

Distribution Of Baylisascaris Procyonis In Raccoons (Procyon Lotor) In Florida, Usa, Mark W. Cunningham, Daniel P. Wolf, Katherine A. Sayler, Michael Milleson, Brittany Bankovich, Paul Schueller, Betsy S. Haley, Savannah Stura, Michael J. Yabsley

United States Department of Agriculture Wildlife Services: Staff Publications

Baylisascaris procyonis, or raccoon roundworm, is an intestinal nematode parasite of raccoons (Procyon lotor) that is important to public and wildlife health. Historically, the parasite was uncommon in the southeastern US; however, the range of B. procyonis has expanded to include Florida, US. From 2010 to 2016, we opportunistically sampled 1,030 raccoons statewide. The overall prevalence was 3.7% (95% confidence interval=2.5–4.8%) of sampled individuals, and infection intensity ranged from 1 to 48 (mean±standard deviation 9.9±4.0). We found raccoon roundworm in 9/56 (16%) counties sampled, and the percent positive ranged from 1.1% to 13.3% of specimens collected per …