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Long-Term Abundance Estimates Of A Northeast Florida Estuarine Dolphin Community: Evaluating The Impacts Of The 2013–2015 Cetacean Morbillivirus Unusual Mortality Event, Allison L. Wilkins

UNF Graduate Theses and Dissertations

Tamanend's bottlenose dolphins (Tursiops erebennus) in the St. Johns River (SJR), Jacksonville, FL, are subjected to substantial anthropogenic stressors (e.g., vessel traffic, dredging, fisheries interactions) and were heavily impacted by the 2013-2015 Mid-Atlantic cetacean morbillivirus unusual mortality event (UME). High prevalence of skin lesions and frequent sightings of emaciated dolphins suggest declining health and viability of the SJR dolphin community. Sighting data from Jul. 2011 to Oct. 2019 provided the rare opportunity to investigate long-term changes in dolphin abundance surrounding the UME. This study produced the first dolphin abundance estimate within the Jacksonville Estuarine System stock since 1997, …

Giant Cane (Arundinaria Gigantea) And The Swainson’S Warbler (Limnothlypis Swainsonii): Implementing Innovative Monitoring Techniques For Species Of Conservation Concern, Gabriela Carroll

Graduate Theses/Dissertations

In the U.S., following colonization and agricultural expansion, giant cane (Arundinaria gigantea) has been reduced to approximately 2% of its original extent, potentially causing shifts in the abundance and distribution of over 70 associated animal species. Among those species is the Swainson’s Warbler (Limnothlypis swainsonii), which has been known to occupy canebrakes during the breeding season. Though there is little known about the historical range of the Swainson’s Warbler and its current population status, some have hypothesized that its population may have declined due to the reduction of its suitable breeding habitat. As this species is …

Tailwater Trout Population Dynamics, Connor Dylan Cunningham

Graduate Theses/Dissertations

Dams have been constructed throughout the world and provide several resources for humans (e.g., flood control, hydropower). These structures heavily alter the upstream and downstream environment. One consequence of these alterations is the creation of “tailwaters”, which can create cold-water habitat via hypolimnetic releases. In the southeast United States these tailwater environments are often managed for the recreational use of nonnative salmonids. The unnatural flow regimes of tailwaters affect the biotic and abiotic conditions and ultimately the dynamic rate functions (i.e., recruitment, growth, mortality) of the fish inhabiting them. As such, the goal of this research is to provide fisheries …

Activity, Movement, And Reproductive Patterns Of The Northern Giant Musk Turtle (Staurotypus Triporcatus) In Belize, Larissa Sage Saarel

Graduate Theses/Dissertations

The Northern Giant Musk Turtle (Staurotypus triporcatus), a near-threatened species native to southern Mexico, Guatemala, Belize, and western Honduras, faces multiple environmental challenges, yet its activity patterns, movement patterns, and reproductive biology remain poorly understood. This thesis investigates both seasonal activity and reproductive cycles of female S. triporcatus in Belize. To assess diel and seasonal activity, I tracked 12 female turtles and collected data using activity loggers. I also collected movement data through radio-telemetry and acoustic tracking methods. Results indicated that the species is primarily nocturnal, with increased activity during the wet season, particularly during flooding events. Turtles …

Climate Change-Induced Shifts In Mediterranean Fungal Fruiting Phenology And Productivity, Rachel Demay

Theses and Dissertations

We used a 29-year dataset of mushroom fruiting from the Pinar Grande forest in northern Spain to investigate the effects of climate change on the phenology, productivity, and diversity of mycorrhizal and saprotrophic mushrooms. We investigated the long-term trends in fruiting season length, yield (by count, total weight, and average weight), and genus richness. Additionally, we identified associations between monthly temperature and monthly precipitation with these fungal responses across functional groups: mycorrhizal, saprotrophic, litter-decaying saprotrophic, and wood-decaying saprotrophic mushrooms, and the economically-important edible genera Boletus and Lactarius. We found that autumnal season length in the Pinar Grande has shortened over …

Bugs In The Flux: Links Between Arthropod Diversity And Spatial Variation Of Soil Respiration In A Temperate Forest, Erin-Darby H. Mcclain

Theses and Dissertations

Soil respiration (Rs) is the largest terrestrial flux of carbon (C) to the atmosphere, with heterotrophic contributions to Rs varying spatially and temporally. While microbes are the primary and most thoroughly studied source of soil heterotrophic respiration (Rh), contributions from higher trophic organisms, including arthropods, are rarely quantified and poorly understood. Arthropod abundance and diversity correspond with variation in soil microclimate, which is influenced by site factors including canopy structure, site productivity, and disturbance. However, the extent to which these site factors influence arthropod abundance and diversity, and consequently, spatial variation in Rs is not known. The objective of our …

Linking Disturbance & Macrophyte Colonization–Extinction Dynamics To Invasion Success & Community Assembly: Integrating Population, Community, & Landscape Perspectives, Joshua T. Armstrong

Theses and Dissertations

Aquatic plants, macrophytes, are foundational components of freshwater ecosystems, influencing abiotic conditions, providing habitat structure, and shaping biodiversity and community assembly processes. Their role is particularly critical in dynamic systems where disturbance regimes and colonization processes interact to shape community patterns and species distributions. Despite their ecological importance, macrophytes remain underrepresented in theoretical and applied studies of metacommunity dynamics and invasion ecology, especially in natural systems experiencing frequent environmental fluctuations. Here we aim to elucidate how macrophytes influence and respond to spatial and temporal variation in aquatic ecosystems, with a particular focus on colonization-extinction dynamics, invasion success, and community assembly. …

Functional And Structural Impacts Of Bison Grazing Intensity On Plant Communities, Samantha Lynn Berk

Graduate Research Theses & Dissertations

The reintroduction of grazing disturbance has become an increasingly popular tool in grassland restoration to build and maintain diverse and functioning ecosystems, but our understanding of how grazers like bison (Bison bison) shape plant communities is limited by binary grazing treatments and unanswered calls for in-depth and mechanistic examinations of community function and structure. Little research has focused on how natural variations in bison grazing intensity impact the function and structure of restored tallgrass prairie; whereby functional diversity is purely defined by changes in trait expression according to plant responses to grazing, and examining both vegetation structure and ecosystem function …

Insect Foraging Behaviors Across Habitat Types In Weddell’S Saddle-Back Tamarins, (Leontocebus Weddelli Weddelli) In Pando, Bolivia, Brianna Nicole Abba

Graduate Research Theses & Dissertations

Researchers assume that small-bodied primates like the callitrichines are highly adaptable to environmental change and can increase their consumption of insects in disturbed habitats, however, these assumptions have rarely been tested. To better understand how habitat and other factors may influence the frequency of insect foraging, the type of prey capture techniques used, and prey capture success, I collected detailed observational data on one group of Weddell’s saddle-back tamarins (Leontocebus weddelli weddelli) in northwestern Bolivia in July and August 2022. I found that tamarins spent 62% of their total foraging and feeding time on insects. They spent 89% of their …

Demographic Response Of Breeding Grassland Birds To Keystone Effects Of Black-Tailed Prairie Dogs, Richard Andrew Dreelin

Graduate Research Theses & Dissertations

Grassland birds are the most rapidly declining group of birds in North America due to a host of historical and recent changes to the Great Plains (Rosenberg et al., 2019; Bernath-Plaisted et al., 2023). Grassland birds evolved in a mosaic of heterogeneous habitats created by disturbance from keystone species and Indigenous peoples, and the suppression of disturbance by European settlement has resulted in more homogenous habitat and population declines in grassland birds (Knopf, 1994; Samson & Knopf, 1996; Vickery, Peter D. et al., 1998). Restoring the historical disturbance patterns and habitat heterogeneity forms the basis of management activities for grassland …

Prospective Use Of Detection Dogs As A Screening Tool For Mycoplasma Ovipneumoniae In Bighorn Sheep (Ovis Canadensis), Michele C. Lovara

Electronic Theses and Dissertations

Mycoplasma ovipneumoniae is a bacterium that can spill over from domestic sheep (Ovis aries) to bighorn sheep (Ovis canadensis), with effects in bighorn sheep ranging from low to no lamb recruitment to whole-herd all-age die-offs from resulting pneumonia. Fast and reliable pathogen or disease detection is essential for managing outbreaks in bighorn sheep and emergences in affected populations. Detection dogs are increasingly being enlisted to close gaps and further complement various disease, pathogen and virus research and response efforts. This thesis explores the use of conservation detection dogs as a potential tool for M. ovipneumoniae surveillance in bighorn sheep through …

One Rung At A Time: Climbing The Ladder Toward Aquatic Connectivity In Eastern South Dakota, Evan Spencer

Electronic Theses and Dissertations

Roads and streams are synonymous with their connection to movement, the acquisition of resources, and as pathways to new opportunities. However, the factors that define good roads and ecologically connected streams are rarely without conflict. Road infrastructure at stream-road crossings has the potential to fragment stream networks. Tube culverts, where streams pass under the road through metal pipes, are particularly concerning for stream connectivity. Undersized, aging, or inappropriately installed culverts can develop vertical drops at the outflow due to high velocities and stream bed scouring. The outlet drop can function as a barrier, preventing the upstream movement of fish. Due …

Whole Genome Sequencing From Snowshoe Hare Fecal Samples, Jessica J. Powell

Graduate Student Theses, Dissertations, & Professional Papers

Genomic analyses can provide powerful insights into important issues in conservation biology, including rapid estimates of overall genetic diversity and related population genetic parameters. Noninvasive DNA sampling from fecal samples is an affordable, efficient, and broadly applicable sampling method that has been used in many targeted genetic analyses. However, the efficacy of whole genome sequencing from fecal samples remains relatively unexplored in most taxa. Here, we present results from two experiments designed to test the quantity and quality of whole genome resequencing data obtained from snowshoe hare (Lepus americanus) fecal pellets. Extensive previous research has used genetic analyses …

Binoculars To Bytes: Development And Field Validation Of An Ai-Driven System For Avian Monitoring, Christian J. Dupree

Graduate Student Theses, Dissertations, & Professional Papers

Autonomous camera-trap arrays coupled with artificial-intelligence (AI) vision can lift bird monitoring beyond the spatial, temporal, and labor limits of traditional field surveys. We present Binoculars to Bytes (B2B), an open-source pipeline that turns 180–360° time-lapse imagery into analysis-ready avian data. At Freezout Lake Wildlife Management Area (Montana, USA) the system ran four-hour morning deployments during spring and fall migrations (2023–2024). A YOLO-NAS detector, incrementally refined with a “Specialized Localized Iterative Model” workflow, quadrupled local accuracy and, after confidence-based species-binning, cut false-positive rates in half. Daily AI species lists were benchmarked against contemporaneous eBird citizen-science checklists and recovered ≥ …

Ocean Acidification Mitigation: Potential Expansion Of Sav Restoration Strategy In The Chesapeake Bay, Cree N. Taylor

UROP Posters

Zostera marina is a species of marine macrophyte that has been largely prioritized in past submerged aquatic vegetation (SAV) restoration initiatives within the Chesapeake Bay because of its 1) previous abundance, 2) demonstrated carbon burial abilities, and 3) observed ability for meadows of Z. marina to ameliorate low pH conditions. Due to the temperature variability and poor water quality associated with anthropogenic disturbances in the Chesapeake Bay, Z. Marina beds have experienced several die-off events with limited capacity for regrowth. This systematic review explored the possible benefits of focusing future SAV recovery initiatives on ensuring a diverse variety of SAV …

The Prize Biter Of Modernity? Investigating Killer Whale Bite Mechanics, Daniel Hong

West Chester University Graduate Theses, Dissertations, and Final Projects

Although the killer whale (Orcinus orca) is a cosmopolitan apex predator, very little work has been done on its feeding biomechanics. Here I use finite element analysis to investigate the mandibular stiffness of a juvenile male Bigg’s killer whale, and compare it to that of the false killer whale (Pseudorca crassidens) and the saltwater crocodile (Crocodylus porosus). Full mandibles and left and right halves of mandibles are simulated under FEA. I also estimate the total jaw muscle force produced by the Bigg’s killer whale using the dry skull method. The killer whale lacks an …

Chironomids Shed Light On Organic Matter Dynamics In Macroinvertebrate Communities In Prairie Pothole Lakes In West-Central Minnesota, Usa, Tracey M. Anderson, Sarah G. Winikoff, Michael L. Sorensen, Melissa L. Rudeen

Biology Publications

The Prairie Pothole Region (PPR) in North America is characterized by a high density of wetlands that can range from temporary habitats to small lakes. Much of the PPR has been converted to agriculture resulting in outright habitat loss, eutrophication, sedimentation, introduction of agrochemicals, and the introduction of invasive plants and animals. We compared two prairie pothole lakes, Cottonwood Lake and Page Lake, to assess the functional roles and trophic structure of the macroinvertebrate communities in this highly altered landscape. We collected macroinvertebrate samples from littoral and profundal regions of each lake with an Ekman grab sampler in winters of …

Urban Coyotes As A Source Of Conflict With Humans: An Evaluation Of Common Management Practices, Paul D. Curtis, David L. Bergman, Angeline Barker, Daniel Bogan, Mary Ann Bonnell, Pierre Canac-Marquis, David Drake, Dave Kay, Brian F. Wakeling, H. Bryant White

Human–Wildlife Interactions Monographs

Wildlife often serves as a catalyst for conflict among stakeholders. Management actions that are intended to address sources of disagreement may initiate additional conflict. The Association of Fish and Wildlife Agencies Human–Wildlife Conflict Working Group initiated an effort to identify management actions commonly used to address unwanted coyote (Canis latrans) interactions within urban environments and identify the benefits and challenges associated with each action. Challenges with coyotes in urban environments include aggressive behavior toward humans and pets, attacks, disease exposure, and domestic livestock damage. Although elimination of all attractants would prove preventative in most instances, in practice this …

Food Finding Ability Does Not Predict Annual Survival In Winter Resident Birds, Aidan Hand

Honors Program: Senior Projects (Public)

Small non-migratory birds in temperate locations face many challenges to survive the winter. They must be able to find enough food, which is in decreased supply, to fuel the energetic demands of staying warm. Prior work has demonstrated that birds show individual variation in their foraging behaviors that could contribute to the discovery of new foraging patches, such as novel environment exploration. A better ability to discover new food sources could increase a bird’s chance of surviving the winter by increasing its access to new food patches. To test this hypothesis, we used radio frequency identification (RFID)-enabled bird feeders to …

Addressing The Productivity-Susceptibility Analysis In Data-Limited Fisheries For Understudied Fish In The Marine Aquarium Trade, Alice Wynn, Jemelyn Baldisimo, Gabrielle Baillargeon, Michael Tlusty, Andrew Rhyne

Biological Sciences Faculty Publications

The marine aquarium trade (MAT) harvests millions of coral reef fishes from the wild yearly. While the MAT supports fishers, hobbyists and marine education, harvested fishes are crucial in maintaining coral reef health and balanced marine cycles within their native habitats. Understanding the impact of the MAT on fish populations is critical for sustaining the trade in the long-term. Productivity-susceptibility analyses (PSAs) offer semiquantitative methods of analyzing the productive capacity of each fish stock, as well as its susceptibility to overfishing. The present study revises and expands upon a PSA conducted by Baillargeon et al. (2020) that focused on 32 …

Genome-Wide Snp Analyses Reveal High Gene Flow Of Endemic Smallscale Croaker (Boesemania Microlepsis) In The Lower Mekong Basin, Quyen Dang Ha Vu, Christopher E. Bird, Oanh Thi Truong, Sang Quang Tran, Ellen E. Biesack, Amanda S. Ackiss, Kent E. Carpenter, Binh Truy Dang

Biological Sciences Faculty Publications

The Smallscale Croaker, Boesemania microlepis, is a valuable fishery resource in the Mekong River basin that lacks clear biological data to understand its basic ecology and conservation management priorities. This species is common in the southernmost floodplain of the Mekong which extends from Tonlé Sap in Cambodia to the Mekong Delta in Vietnam. This floodplain is of particular biodiversity conservation concern because of the many upstream dams that restrict water flow in an ecology that relies heavily on a flood-pulse cycle. The literature regarding the biology B. microlepis in this region contains conflicting ideas that populations are both highly …

Endocrine Responses To Two Distinct Foraging Contexts In The Bonobo (Pan Paniscus), Lauren Mitchell

Master's Theses

In gregarious animals, a social structure characterized by female dominance is relatively rare. However, bonobos (Pan paniscus), one of the two species most closely related to humans, are characterized by partial female dominance, with females forming close social bonds. In contrast, chimpanzees (Pan troglodytes), a close relative of the bonobo, are characterized by strong male-male bonding and social dominance with female chimpanzees lacking close social bonds. There is a lack of consensus concerning the reasons for these behavioral differences in Pan, specifically, the physiological processes responsible for female dominance in bonobos. The role of hormones …

Group And State-Specific Estimation In Animal Movement Models Using A Bayesian Approach, Anita Bhandari Sharma

Dissertations and Doctoral Documents, University of Nebraska-Lincoln, 2023–

This research study investigates statistical approaches for modeling the movement patterns of white-tailed deer in Louisiana using GPS tracking data. We start by classifying the latent behavioral states using a hidden Markov model (HMM) and then integrate those inferred states into a state-dependent step selection framework to evaluate the land cover preferences. Standard HMMs, however, assume the same movement patterns for all animals, overlooking the differences due to characteristics such as sex, age, breeding season, etc.

To address this limitation, we extend the modeling framework to incorporate the group-level structure defined by similar characteristics or conditions to assess whether such …

Patterns Of Kinship And Sociality In North American River Otters, Whitney E. Vickers

Cal Poly Humboldt theses and projects

Previous studies of river otters (Lontra canadensis) in coastal Humboldt County, California have documented varying social group compositions over the last four decades. It has been assumed that otters travel between coastal wetland sites, but the extent of movement has been unknown. Socially, river otters have been observed alone, in small family groups that consisted of an otter mom and pup(s), in larger helper groups that consisted of an otter mom, pup(s), and at least one additional adult or juvenile (helpers), and in all-adult social groups. Until now it was unknown whether the composition of social groups was …

The Effects Of Salinity On The Cutaneous Microbiome And Pathogen Infection On The Pacific Tree Frog (Pseudacris Regilla) In Monterey Bay, California, Usa, Hannah Eunhae Kim

EWU Masters Thesis Collection

Global climate change and infectious diseases are considered a leading cause of amphibian population declines worldwide. Changes in precipitation and salinity have altered watershed systems and microbial communities, reducing habitat availability and physiological performances for amphibian survival. The salt refuge hypothesis, however, is a proposed explanation that higher saline environments may reduce susceptibility to pathogens such as Batrachochytrium dendrobatidis (Bd). The Moro Cojo Slough State Marine Reserve (MCSSMR) (California, USA) is known as an abundant breeding ground for endangered/threatened amphibian species. To test and expand the salt refuge hypothesis, I evaluated Bd prevalence and intensity and the cutaneous microbiome of …

Investigating The Relationships Between Biotic And Abiotic Factors Affecting Migratory Behavior In Westslope Cutthroat Trout Within The Pend Oreille System, Garrett M. Duncan

EWU Masters Thesis Collection

Salmonids express several different life histories from migrating to oceans and back or staying in their natal streams as a resident. Migratory individuals are a vital part of the overall success of populations due to the potential for increased genetic diversity and increased fecundity they offer over resident individuals. This research was completed in three basins including Priest River, Pack River, and Lightning Creek which are all connected to the Pend Oreille Basin and are important producers of Westslope Cutthroat Trout (Oncorhynchus clarkii lewisi). Thirty-nine sites were sampled between the three basins. Results were compared between these tributaries that have …

The Seasonality And Community Composition Of Mosquitoes At Turnbull National Wildlife Refuge, Jonathan Becerra

EWU Masters Thesis Collection

Characterizing mosquito species composition and seasonal dynamics is fundamental to understanding how mosquito communities change across time and space. This study examined the structure, temporal patterns, and spatial variation of the mosquito community at Turnbull National Wildlife Refuge (TNWR) using three years of CDC light-trap data (2017–2019). We applied multiple complementary analytical approaches—including presence/absence and CPUE models, annual and species-specific generalized additive models (GAMs), peak-timing ANOVA, and multivariate analyses (NMDS, PERMANOVA, and indicator species analysis)—to quantify species-level seasonality, phenological staggering, and community-level patterns across years and between two sampling locations (Gate and Headquarters). Across all model families, species identity and …

Précis Of The Edge Of Sentience: Risk And Precaution In Humans, Other Animals, And Ai, Jonathan Birch

Animal Sentience

We often face grave practical decisions that seem to hinge on whether a system is sentient. This family of cases includes invertebrate animals, people who are unresponsive after brain injury, fetuses, neural organoids, and now AI technologies. We must decide what to do despite ongoing disagreement about the nature of sentience. In our state of uncertainty, we should pragmatically transform the question from “Is it sentient?” to “Is it a sentience candidate, an investigation priority, or neither?”. When a system is a sentience candidate, it is negligent to fail to consider precautions. We should instead evaluate precautions for their proportionality …

The Role Of Floodplain Complexity In Wood Turtle Habitat Use, Laura S. Deming

Antioch University Dissertations & Theses

Wood turtles occupy cold, low-gradient riverine habitat throughout the northeastern United State and southeastern Canada. Stream alterations, such as dams, channel straightening, and floodplain development have diminished the natural hydrologic and sedimentation regimes that result in complex channel and floodplain geomorphology. Studies throughout the species’ range have quantified many aspects of their habitat, but none have quantified components of geomorphology of wood turtle sites. The goal of this study was to explore the role of stream channel and floodplain geomorphology in wood turtle habitat use, with specific objectives to (1) quantify components of stream channel and floodplain geomorphic complexity, (2) …

In The Footsteps Of Moose: Using Non-Invasive Techniques To Identify Cause-Specific Calf Mortalities And Evaluate Moose (Alces Alces) Movements Pertaining To Mineral Lick Locations On Ancestral Lands Of The Grand Portage Ojibwe, Anna B. Weesies

Electronic Theses and Dissertations

Following a sharp moose (Alces alces; mooz, Anishinaabemowin, Ojibwe language) population decline in northeastern Minnesota during the early 2000s, the Grand Portage Band of Lake Superior Chippewa initiated a long-term moose collaring effort to assess survival and mortality causes. Moose are a culturally important species to the Band, with annual subsistence hunts held on the Reservation and adjacent 1854 Ceded Territory. Continued research guides culturally appropriate management decisions aimed at bolstering calf and adult survival, helping to preserve this moose in Minnesota today and for subsequent generations. Chapter 1 identifies cause-specific calf mortality rates in this multi-predator system using minimally …