Digital Commons Network^™

Noninvasive Monitoring Techniques: The Use Of Scat-Sourced Dna And Camera Traps To Monitor Mammalian Carnivore Species At The Ucf Arboretum, Zachary Montealegre

Honors Undergraduate Theses

The 800-acre University of Central Florida Arboretum Natural Lands functions as a conservation area, recreational space, and research site, making it essential to understand the ecological community it supports. Traditional wildlife monitoring methods such as mark-recapture and blood sampling can be effective but may stress animals or disrupt natural behaviors. To minimize these impacts, this study used non-invasive techniques, specifically scat-based DNA analysis and camera trapping, to assess carnivore species' presence. Two ecologically similar sites within the Arboretum were selected. Suspected carnivore scat was collected twice weekly over two months using both structured and opportunistic sampling. DNA was extracted, amplified, …

Assessing Urban–Rural Differences In Largemouth Bass Abundance In Minnesota, Jonathan Gates

Journal of Earth and Life Science

Urbanization can significantly alter freshwater ecosystems and influence sport fish populations. This study examined differences in largemouth bass Micropterus nigricans catch-per-unit-effort (CPUE) between urban and rural lakes in Minnesota and evaluated temporal changes between 2000–2010 and 2011–2021. Forty lakes (20 urban, 20 rural) were selected using Minnesota Department of Natural Resources fisheries survey data. Lakes were classified using NLCD 2019 land cover data, with ≥10% developed land designated as urban. Nonparametric analyses (Wilcoxon rank-sum and signed-rank tests) were used to assess spatial and temporal differences in CPUE. Results showed that rural lakes had consistently higher median CPUE than urban lakes …

Development Of A Python Pipeline For The Inference Of Selection In Human Genomes And Applications To Adh1b*2, Aine Macdermott

Honors Theses

Human evolutionary genomics provides an avenue to understand how genetic variation has been impacted by the environmental pressures of the past, revealing how selective pressures impacted past populations and contributed to present-day biological diversity. In this thesis, I describe the construction of a Python-based computational pipeline designed to automate and integrate multiple analyses of positive selection across worldwide population datasets, including derived allele frequency calculation, haplotype-based tests of selection, RELATE-based genealogical inference, and CLUES2-based temporal modeling. By automating file preparation, format conversion, job submission, result aggregation, model comparison, and visualization, this pipeline streamlines the data interpretation process, and shifts focus …

Systematics Of Disk-Winged Bats (Thyroptera), Courtney L. Klumpp

Capstone Showcase

This thesis investigates the evolutionary relationships among disk-winged bats in the genus Thyroptera, a small group of Neotropical bats known for the adhesive suction disks on their wings and feet that allow them to roost inside tightly rolled leaves. The distinctive morphology and behavior of these bats have not been extensively documented, and their phylogenetic relationships remain only partially resolved. The goal of this research is to better understand how these species are related to one another and to determine whether the five recognized species of Thyroptera form a single monophyletic group. To address this question, morphological and genetic …

Climate And Seasonal Influences On Indo-Pacific Sea Level: Insights From 30 Years Of Satellite And Tide Gauge Data, Karlina Triana

ASEAN Journal on Science and Technology for Development

We analyze Indo-Pacific sea-level variability using monthly satellite altimetry (1993–2025) validated against records from 16 tide-gauge stations. Cross-comparisons show strong agreement, especially in the western Pacific, confirming the reliability of altimetry for regional assessments. Seasonal SLA variability is largest in the Bay of Bengal and South China Sea and reflects monsoonal forcing, whereas interannual fluctuations in the eastern Indian and western Pacific oceans are dominated by ENSO and modulated by PDO. Harmonic decomposition isolates annual and semi-annual cycles, and an EOF/PCA framework identifies the leading modes: EOF1 (30.8%) captures basin-scale interannual variability and EOF2 (20.9%) reflects the seasonal cycle. Spectral …

Strengthening Ocean Literacy: Marine Science Education And Training To Ensure Australia's Blue Future, Prue Francis, Rachel Kelly, Louise Swanson, Tanveer M. Adyel, Benjamin Arthur, Kirsten Benkendorff, Melanie J. Bishop, Helen Bostock, Marnie L. Campbell, Emma Church, Corrine Condie, Vaibhavi Dwivedi, Michelle Dyer, Matthew England, Liam Fullbrook, Charlie Huveneers, Malcolm Johnson, Brianna Le Busque, Rebecca R. Mcintosh, Amelie Meyer, Benjamin Mos, Jana Mrazova, Allyson O'Brien, Gretta T. Pecl, Amandine Schaeffer, Rebecca J. Shellock, Grant A. Smith, Scott Smithers, Ana Vila-Concejo, Graham Wood

Research outputs 2022 to 2026

This white paper sets out a national vision for advancing ocean literacy in Australia and outlines the role of marine science in fostering an informed, engaged society capable of addressing the challenges and opportunities of our changing oceans. As environmental pressures intensify, and marine resource demands increase, Australians’ capacity to engage with ocean issues, understand risks and opportunities, and participate in marine decision-making has never been more urgent. Marine science will play a central role in building ocean literacy by delivering credible, actionable science, and strengthening education and training systems that enhance understanding of, and connection to, the ocean. Our …

A Hybrid Geospatial And Remote Sensing Methodology For Drought Vulnerability Assessment In Semi-Arid Ecosystems, Kaifi Fakhir Chomani

Mansoura Engineering Journal

The Kurdistan Region of Iraq (KRI) faced significant drought challenges due to global and environmental changes, necessitating drought assessments. Advanced techniques of remote sensing, Geographic Information Systems (GIS), and Analytic Hierarchy Process (AHP) were combined in this research to perform drought vulnerability zonation for KRI. Average annual rainfall, Average number of rainy days, Average annual temperature, slope, elevation, normalised difference water index (NDWI), normalised difference vegetation index (NDVI), land surface temperature (LST), and temperature condition index (TCI) were selected as contributing parameters for drought vulnerability assessments. The considered parameters were weighted using pairwise comparison, and thematic maps were created to …

Nanoparticle Carriers Enhance The Prophylactic Antiviral Effects Of Dsrna In Vitro And Ex Vivo, Shayne Oberhoffner, Stephanie Dewitte-Orr, Starla Richardson, Leah Haile, Dominique Daniels, Erin Cooper, Aizah Ijaz, Janet Velasquez Perez, Mathilde Peruzzi, Bertrand Collet, Paul Craig, Kristof Jenik

Theses and Dissertations (Comprehensive)

Aquaculture now outpaces traditional capture fisheries as the world population and demand for sustainable protein sources increases. Wild and farmed species are increasingly susceptible to pathogen spread as global temperatures rise and stocking densities increase. Despite the devastating losses experienced by aquaculture due to viral infections, there remain few effective prophylactic antiviral therapeutics. Long double-stranded (ds)RNA is a uniquely viral molecule produced by nearly all viruses during their replication cycle, and its detection by salmonids like rainbow trout (Oncorhynchus mykiss) and chinook salmon (Oncorhynchus tshawytsha) leads to the establishment of a defensive antiviral state. Previous in vitro studies demonstrated a …

Hybridization And Introgression In Marine Invertebrates: Population Genomics Of Phymactis Papillosa And Asterias Sea Stars, Christopher J. Dookie

Dissertations and Theses

Hybridization and introgression are evolutionary significant processes in marine invertebrates (Sanford & Kelly,2011) yet genome-wide investigations of gene flow in these taxa remain limited relative to vertebrate systems (Marchi et al., 2021). This thesis presents genomic analyses of hybridization and introgression in two marine invertebrates occupying contrasting oceanographic settings and characterized by contrasting genomic datasets: restriction-site associated DNA sequencing (RADseq) SNP data for the eastern Pacific sea anemone Phymactis papillosa and whole genome sequencing (WGS) data for the North Atlantic sea stars Asterias rubens and Asterias forbesi. For each system, I applied coalescent-based species tree inference using CASTER (Zhang …

Assessing Fisheries Dependence Of Coastal Communities In Managed Mangrove Forests In Latin America, Ariel Alexander Quintanilla Magana

Open Access Dissertations

Fisheries dependency refers to the action of a person, community, or society linking their social, cultural, and economic actions to different ecosystem services (ES) for covering their food system with essential marine species, developing a governance system to conserve these fishing areas, their local ecological knowledge, and guaranteeing food security in the coastal areas. In Latin America, most fishing activities are practiced within three nautical miles of the shoreline, estuaries, lagoons, and mangrove forest channels, using small vessels and traditional gear such as hooks, trammel nets, and gill nets. Some coastal communities have developed their subsistence and livelihood activities in …

Exploring Factors Mediating White-Nose Syndrome In Little Brown Bats, Carly R. Trujillo

Graduate Theses/Dissertations

The little brown bat (Myotis lucifugus) has experienced drastic population declines across North America due to the recent disease white-nose syndrome (WNS). Previous studies have identified putatively adaptive alleles (PAAs) that may give individuals a greater likelihood of survival. However, there could be geographic-specific adaptation, creating different adaptive landscapes. Additionally, there may be energetic trade-offs between disease survival and reproductive output, and it is not clear what the long-term survival outcomes for the species may be as a result. Long-term evolutionary outcomes are unclear because this species has a lifespan exceeding the arrival of WNS and is difficult …

Federated And Explainable Spiking Neural Networks For Fair And Privacy-Preserving Nail Disease Diagnostics, Ch Pavani Reddy, Krishnanaik Vankdoth

Mansoura Engineering Journal

Automated nail disease diagnostics provide a non-invasive pathway for identifying underlying systemic health conditions; however, conventional centralized deep learning approaches often raise concerns related to privacy, fairness, and interpretability. Although the original NeuroNail-SNN framework demonstrated an energy-efficient and edge-ready diagnostic solution, its broader clinical adoption remained limited by unresolved trust, transparency, and ethical considerations. In this study, we propose the Federated and Explainable NeuroNail-SNN, which extends the original spiking neural architecture by integrating federated learning (FL), explainable artificial intelligence (XAI), fairness evaluation, and uncertainty quantification within a unified framework. Federated learning enables decentralized model training across hospitals and mobile clinics …

Managing The Legacy Of Historical Land Use In Central Appalachia: Soil Health, Carbon Storage, And Restoration Across Disturbed Ecosystems, Kyra R. Dukich

Graduate Theses, Dissertations, and Problem Reports (ETD)

Historical mining, intensive timber harvesting, agriculture, and atmospheric acid deposition have left lasting impacts on soil health throughout the Central Appalachian region, reducing soil productivity, carbon storage, and ecosystem resilience. This thesis evaluated restoration strategies across two long-term research systems in West Virginia to determine how land-use history and soil amendments influence soil health, carbon dynamics, and ecosystem recovery. The first study examined reclaimed mine lands and marginal agricultural soils planted with switchgrass (Panicum virgatum) or willow (Salix spp.) and treated with biochar or inorganic fertilizer. Soil greenhouse gas production, aggregate stability, total soil C:N, pH, and soil organic matter …

Phylogeography, Fungal Host Specificity, And Fitness In The Corallorhiza Maculata Species Complex, Hana Thixton-Nolan

Graduate Theses, Dissertations, and Problem Reports (ETD)

Mycoheterotrophic plants exploit fungi for most or all nutritional needs, providing a compelling system to address the evolutionary consequences of genome reduction, population-level variation, and germination requirements. I am using the widespread Corallorhiza maculata species complex to address questions of genomic variation, fungal host specificity, morphological variation, and germination requirements across the broad geographic range from Mexico to northern North America. This complex contains C. bulbosa, C. macrantha, and C. mertensiana, the latter with three varieties (maculata, occidentalis, and mexicana). These taxa vary in flowering time, floral morphology, and fungal associations. However, the degree …

Epidemiology Of Closed Ruptured Tendoachilles, Hesham Mousad Alsakaan, Wael Mansour Wafa, Mohieb Sayed Ahmed, Ahmed El Sayed Magdy Elhawary

Mansoura Medical Journal

Background: To restore tendon function and avoid long-term impairment, early diagnosis and adequate treatment are crucial. The purpose of this study was to ascertain the incidence pattern of ATR and to pinpoint possible variables related to presentation and management approach.

Aim  identifying potential risk factors either patient or environmental related and to assess the incidence rate of ATR

Patients and Methods: This retrospective cross-sectional study was performed on 87 achilles tendon rupture patients. All the patients were subjected to full medical history taking. Clinical examination was performed including thompson test and Matles test and radiological investigations.

Results: The median age …

Unintended Consequences Of Estuarine Management Within The Trajectory Of Recovery: Examples From The Chesapeake Bay, Jessica S. Turner, Fei Da, Molly M. Mitchell

OES Faculty Publications

Estuaries are vital ecosystems that support biodiversity, human populations, and economic activities such as fisheries, aquaculture, and tourism. Managing estuarine systems often involves interventions to regulate sediment and nutrient inputs with the goal of improving water quality, and subsequently the economic values of the estuary. However, these management strategies can produce unintended consequences. The Chesapeake Bay is an estuary recovering from eutrophication which provides clear case studies for these patterns. In the Chesapeake Bay, decreased sediment inputs, resulting from shoreline stabilization and watershed modifications, can impair marsh resilience to sea level rise and disrupt sediment-light-algal interactions affecting water clarity. Likewise, …

Assessing The Diversity And Composition Of Crayfish Assemblages In The Ogeechee River Basin, Reginald Turner

College of Graduate Studies: Theses & Dissertations

Crayfish assemblage composition in the southeastern United States is understudied relative to other aquatic taxa, such as aquatic insects and fishes, and the Coastal Plain watersheds of that region are particularly underrepresented in the contemporary literature on this topic. For example, although 38% of the crayfish species in Georgia are considered “species of greatest conservation need,” most of the distributional data used to make these designations are outdated, with some dating back over 50 years. This thesis sought to update our understanding of the contemporary distributions of crayfish species within the Ogeechee River Basin (ORB), a watershed in southeastern Georgia …

The Effects Of Environmental Complexity On Brain Development And Personality Expression In Western Hognose Snakes, Gokulan Nagabaskaran

Theses and Dissertations (Comprehensive)

There is growing interest in snake cognition, personality, and welfare as more snakes are kept as pets, yet little research has been conducted. The effects of enrichment and environmental factors have been well documented in other taxa, and recent evidence suggests that snakes may benefit in similar ways. This dissertation investigated the impact of environmental and social enrichment on personality expression, personality stability, and brain development. Western hognose snakes (Heterodon nasicus) were used as the model species, as they are a popular choice in the pet trade. This allows the research to be readily translatable to husbandry practices of many …

Study Of Fire Regimes In Southwestern Australia Using Geospatial Techniques, Ana Do Carmo Carvalho

Theses: Doctorates and Masters

The Northern Jarrah Forest in Southwestern Australia (SWA), part of a global biodiversity hotspot, is home to fire-sensitive tree species such as marri (Corymbia calophylla) and jarrah (Eucalyptus marginata). As climate change intensifies drought and extreme fire events, understanding the drivers of fire severity is increasingly critical. This thesis analyses fire regimes within the Mundaring drinking water catchment to better understand the spatiotemporal complexity of fire severity in relation to fire history and environmental factors.

The thesis commences with a review of three Fire History Databases (FHDs) used in SWA, highlighting significant inconsistencies and data gaps across time and space. …

Barriers And Corridors: Timber Rattlesnake Habitat Connectivity In New York, Lauren Rose

Electronic Theses & Dissertations (2024 - present)

Habitat fragmentation poses a significant threat to species that rely on landscape connectivity for movement in search of food, water, and mates. The timber rattlesnake (Crotalus horridus), listed as a threatened species in New York State, travels an average of 1.5 miles—and up to five miles—from permanent denning sites to reach habitat suitable for gestation, foraging, basking, and overwintering. Ongoing development in the lower Hudson Valley has increasingly fragmented these critical habitats, restricting movement between den populations. This thesis evaluates landscape barriers that contribute to population isolation and identifies opportunities to restore connectivity among timber rattlesnake metapopulations.

Using …

Species Boundaries Of The Rare Menzies’ Wallflower (Brassicaceae: Erysimum Menziesii), An Endemic Of The Northern California Coast, Cameron M. Jones

Cal Poly Humboldt theses and projects

Morphological similarity among geographically isolated populations can obscure deep evolutionary divergence, especially when convergent evolution under similar environmental conditions yields comparable phenotypes across independent lineages. Such cryptic diversity is likely underestimated in hotspots like the California Floristic Province (CFP), a global biodiversity hotspot, defined by its Mediterranean-like climate and encompassing most of California, southwestern Oregon, and northwest Baja California. The CFP is home to a disproportionate number of narrow endemics whose origins and evolutionary relationships remain poorly understood. Here, I investigate the evolutionary origins of Erysimum menziesii (Brassicaceae), a federally endangered California coastal dune endemic whose fragmented distribution has led …

Ectomycorrhizal Fungi Associated With Pinus Species Of California's Northwestern Coast, Monika Audrey Richardson

Cal Poly Humboldt theses and projects

Ectomycorrhizal (ECM) fungi are vital for increasing host plant uptake of nutrients and stress tolerance within ECM forest ecosystems. The species assemblage of ECM fungi can vary locally in response to numerous biotic and abiotic environmental factors. In California’s northwestern coast the occurrence of three Pinus species, along with a disjunction between populations of Pinus muricata in Mendocino and Humboldt Counties, offer a unique opportunity to investigate the spatial and host effects on pine-associated ECM fungi. Ectomycorrhizal fungal community structure was quantified from host tree roots and sequenced sporocarps occurring at the same sites to create a project specific ITS …

Change In Community Composition And Structure On Subtidal Rock Walls In The Gulf Of Maine Over Four Decades Of Warming, Breck A. Mccollum

Graduate Doctoral Dissertations

The Gulf of Maine (GOM) has faced many changes over the last 47 years from overfishing of its iconic cod fish stocks to the introduction on non-native species, but no change has been as dramatic as the warming ocean temperatures that began to increase rapidly in the 2010s. This thermal shift is due largely to the northward movement of the Gulf Stream current mixing with Arctic meltwater before entering the GOM. Average summer temperatures jumped by 3.35°C between the periods of 1980-1985 and 2015-2020. This warming trend, combined with an increasing frequency of marine heat wave events, has led to …

Intercontinental Variation In Population Genetics And Life-History Traits In Native And Invasive Populations Of The Aquatic Plants Myriophyllum Spicatum And Myriophyllum Sibiricum, Anastasia V. Mozharova

Graduate Doctoral Dissertations

Biological invasions pose significant threats to freshwater ecosystems worldwide, and understanding their evolutionary, genetic, and biogeographic drivers is essential for effective management. My dissertation integrates microsatellite and ITS rDNA data to examine the dynamics of both invasive and native populations of two closely related aquatic plant species, Myriophyllum spicatum (Eurasian watermilfoil) and M. sibiricum (Northern watermilfoil).

Myriophyllum spicatum is native to Eurasia, where it inhabits a variety of freshwater aquatic habitats. Since its introduction to North America in the mid-20th century, it has become highly invasive, forming dense underwater mats that outcompete native vegetation, reduce biodiversity, and degrade water quality. …

Artificial Intelligence As A Catalyst For Systemic Sport Ecology, Ugo Arbieu, Laís Carneiro, Sonia Tieo, Franck Courchamp

Journal of Applied Sport Management

Artificial intelligence (AI) is reshaping both sport management and environmental science, yet these developments have largely evolved in parallel. AI can serve not merely as a technical tool but also as a catalyst for systemic sport ecology, a field that integrates sport, digital innovation and environmental sustainability. Advances in discriminative, generative and agentic AI enable the synthesis of complex ecological and sport-related data, improving monitoring, forecasting, resource efficiency, policy design, and decision-making across scales. In doing so, AI offers a pathway beyond fragmented sustainability interventions and can support holistic approaches to the interconnected crises of climate change, pollution, and biodiversity …

Water Quality And Plankton Diversity Of Ahi River, Ohiya, Umuahia, Nigeria, Emeka Donald Anyanwu, Egor Katkov, Udeme Effiong Jonah, Amarachuku Ezinne Oji, Immaculate Chiamaka Enwereuzo

Journal of Bioresource Management

The plankton diversity of large and urban rivers has been extensively studied in Nigeria while small rural rivers that harbour rich aquatic biota receive little attention. The composition, abundance, and distribution of plankton of a rural river were assessed in relation to some physicochemical parameters. The study was carried out between May and October 2023 in 3 stations using standard methods. The physicochemical results were: temperature (25.2-27.0^oC), flow velocity (0.15-0.46 m/s), transparency (14.0-78.5cm), depth (51.0-105.0cm), pH (5.6-7.8), electrical conductivity (66.0-98.0 µS/cm), total dissolved solids (33.0-49.0 mg/l), turbidity (0.1-1.7 NTU), dissolved oxygen (3.2-6.4 mg/l), biochemical oxygen demand (1.0-2.7 mg/l), …

Food Safety Concerns: A Review On Pathogenic Microbes Associated With Common Edible Insects, Anitha Philbert

Tanzania Journal of Science

This review explored the pathogenic microbes associated with common edible insects. With rising human populations and fluctuating food supplies, edible insects offer a rich source of protein, vitamins, and minerals and are culturally accepted in many regions. Despite their nutritional benefits, knowledge on microbial hazards associated with edible insects is fragmented. The review focuses on commonly consumed species, including Tenebrio molitor, Zophobas morio, Acheta domesticus, Gryllus bimaculatus, Locusta migratoria, Ruspolia differens, Bombix mori, Bunaea alcinoe, and Oryctes monoceros. A total of 43 pathogenic bacteria and 20 pathogenic fungi linked to these edible insect species were identified. The most frequently reported …

Substantial Contribution Of Woody Components To Rainfall Interception In Chinese Forests: Insights From A Refined Analytical Model, Zhi-Ang Chen, Zhi-Yun Jiang, Wei He, John T. Van Stan Ii, Et. Al.

Biological, Geological, and Environmental Faculty Publications

Assessing rainfall interception (I-R) is a critical yet uncertain aspect in hydrological cycle, particularly the quantification of relative contributions from leaves and woody components (e.g., branches, stems, and trunks) to I-R. Nevertheless, the role of woody components in I-R estimation remains largely unexplored and thereby has been constantly overlooked. This study addressed this challenge and refined the widely-used Gash model to distinguish woody interception (I-W) from leaf interception (I-L). We incorporated the spatial variability of vegetation traits alongside satellite data in 2019 into the refined model, and spanned China's major forest types. The refined model showed a strong agreement with …

Comparisons Of Fish Communities Between A Restored And A Control Pool Of The Mississippi River: A Before-And-After Examination, Hannah Lenning

Biology Theses, Dissertations, and Student Creative Activity

The quality and availability of valuable backwater habitats have declined in many rivers, including the Upper Mississippi River (UMR), due to river modifications and land use change. Habitat Rehabilitation and Enhancement Projects (HREPs) are implemented by the Upper Mississippi River Restoration Program and often aim to mitigate accelerated sedimentation and degradation of backwater habitats. One HREP in Pool 12 of the UMR targeted overwintering fish habitat by restoring four backwaters within 14 RKM. Fish community data was collected before (2006-2012) and after (2020-2024) restoration in Pool 12 and a downstream, control reach, Pool 13. The first objective of my study …

Enhancing Public Health Strategies: Addressing The Rsv Burden In Alabama Through Clinical Treatment, Community Prevention, And Surveillance Approaches, Martha K. Findley Roper, Jennifer S. Dawson

Journal of Public Health in the Deep South

Introduction: Respiratory Syncytial Virus (RSV) is a highly contagious pathogen driving morbidity, hospitalizations, and economic burden. This review uses the epidemiological triad and National Wastewater Surveillance System data to assess transmission, viral load spikes in Alabama, and strategies for treatment and prevention.

Methods: A review of literature on supportive care, vaccination, monoclonal antibodies, and emerging nanomedicine was reviewed to evaluate strategies for reducing viral burden and complications.

Results: Trends from December 2024–January 2025 were assessed with National Wastewater Surveillance System data. Primary prevention includes immunization, hygiene, air quality maintenance, and early diagnostics. Tertiary care addresses complications such as secondary …