Digital Commons Network^™

Nutrient Leaching Under Traditional And Intercropped Cover Crop Fields In Northern Utah, Katherine Hewitt

All Graduate Theses and Dissertations, Fall 2023 to Present

This study examines whether cover crops can be used in Utah and the Intermountain West to improve water quality and reduce contamination due to nutrient leaching from agricultural soils into the groundwater. Cover crops such as grasses, clover, and other seed mixtures can be planted to improve soil health, increasing the soil’s ability to retain water and nutrients, which reduces the amount of nitrate and phosphate fertilizers lost through leaching and contamination. In Utah, short growing seasons and limited irrigation water availability hinder the ability to establish cover crops. By planting the cover crop between the rows (intercropping) when the …

Integrative Taxonomic Analysis Of Cryptic Species Diversity In The Spiny Witch-Hazel Gall Aphid, Hamamelistes Spinosus (Hemiptera: Aphididae: Hormaphidini) In Eastern North America, Gavin Andrew Powell Munson

All Graduate Theses and Dissertations, Fall 2023 to Present

Taxonomy is the practice of identifying, classifying and categorizing species, providing structure for the vast diversity of life. Aphids are an ecologically important group of soft-bodied insects, but they can be difficult to identify because of their tiny anatomical size, reduced or simplified morphological features, and morphological variation within a single species across different generations. In this study, the taxonomy of the spiny witch-hazel gall aphid, Hamamelistes spinosus, is revised. The complex multi-generational life cycle of the aphids, which alternates between witch-hazel and birch trees, has led to confusion regarding past descriptions. Scientists in the late 1800s who were …

The Role Of Phenotypic Plasticity And Bet-Hedging In Coping With Unpredictable Temperature Fluctuations In The Marine Annelid Ophryotrocha Labronica, Gabrielle Dawn Newton

Biological Sciences Theses & Dissertations

Coastal ecosystems are increasingly exposed to unpredictable temperature fluctuations, potentially favoring strategies that buffer populations against environmental uncertainty. This study examines how phenotypic plasticity and diversified bet-hedging contribute to variation in life-history traits under differing thermal predictability in the marine annelid Ophryotrocha labronica. After three generations at 24 °C, broods were reared for three generations under four thermal regimes: constant 24 °C (C24), constant 27 °C (C27), predictable fluctuations (Fp), and unpredictable fluctuations (Fu). Survival was assessed before and after acclimation to evaluate selective pressure among regimes. Age at maturity, fecundity, and growth rate were used to quantify plasticity (trait …

Menopausal Symptoms, Psychosocial Factors, And Physical Activity Among Physically Active Midlife Females, Ella Onsoriasl

Exercise Science Theses & Dissertations

Menopausal symptoms are common during midlife and may be associated with females' physical activity (PA) participation, yet how these symptoms relate to PA levels, perceived confidence and enjoyment, and psychosocial resources such as social support (SS), exercise identity, and quality of life (QOL) remains unclear. The purpose of this study was to examine how menopausal symptom severity relates to PA levels, perceived confidence and enjoyment during PA, and psychosocial factors, including SS, exercise identity, and QOL. This cross-sectional study surveyed 151 midlife females aged 40 to 60 who reported engaging in intentional PA at least once per week. Participants completed …

Time-Frequency Analysis Of Arterial Pulse Signals Of Cardiovascular Disease Patients Measured By A Microfluidic-Based Tactile Sensor, Md Mahfuzur Rahman

Mechanical & Aerospace Engineering Theses & Dissertations

This dissertation presents a single-degree-of-freedom (SDOF) based time–frequency analysis framework that can simultaneously extract a comprehensive set of cardiovascular autonomic indices from arterial pulse wave recordings obtained at rest and post-exercise, supporting non-invasive monitoring of autonomic recovery during cardiac rehabilitation. The framework rests on three technical contributions.

First, an SDOF analytical model of motion artefacts quantifies two physically distinct distortion mechanisms: additive baseline drift and Time-Varying System Parameter (TVSP) generated distortion of the Tissue-Contact-Sensor (TCS) stack. Baseline drift is slowly varying and removable by filtering; TVSP distortion rides on all harmonics of the true pulse signal and cannot be removed …

Pre-Post Changes In Physiological, Cognitive, And Motivational Outcomes Following An Active Video Game Intervention In Adolescents And Adults: A Pilot Study, Ashley Williams, Danielle D. Wadsworth, Thaangiah Geetha

Publications

Active video games (AVG) are emerging as a promising home-based strategy to increase physical activity by integrating movement into interactive gameplay. However, evidence remains limited regarding their effectiveness across physiological, cognitive, and motivational outcomes in adolescents and adults within household settings.

A Comparison Of Survival, Growth, And Stress Resilience In Three Different Lineages Of The Pacific Oyster (Crassostrea Gigas) Farmed On The California Central Coast, Victoria F. Hanshaw

Master's Theses

Aquaculture of Pacific oysters on the US West Coast is routinely impacted by seasonal unexplained mortality events. To better understand these large-scale mortality events in oyster aquaculture, shellfish growers and scientists in California have partnered together to conduct comparative, multi-estuary farm trials of discrete Pacific oyster (Crassostrea gigas) lineages. In this thesis we investigate how the more recently imported Midori lineage performs compared to the historically used Miyagi lineage, as well as a Hybrid (Midori x Miyagi) lineage. As part of a 7-month long field study from April-November of 2024 in Morro Bay and Tomales Bay, California, we evaluated …

The Effect Of Specialty Malt On Dry-Hopping, Alexander Kivela

Master's Theses

Dry-Hopping is a modern and ever-increasing method to add hoppy flavors to beer. This is typically seen in pale ales and India Pale Ales (IPA’s). Most research has investigated the effect of dry-hopping only using pale malt, whereas most breweries used specialty malts to create a malty backbone to their beer.

The objectives of this research were to analyze the impact of specialty malts and their concentration on the efficacy of hop flavor and extraction, determined via gas chromatography and sensory analysis. Gas chromatography analysis was modeled after the ASBC Method Beer-48. Sensory analysis was performed via the 15cm line …

Comparative Assessment Of Developmental Fidelity In Hpsc-Derived Neural Crest Cells, Michael H. Zepeda

Electronic Theses, Projects, and Dissertations

Neural crest cells (NCCs) are a transient, multipotent cell population that contributes to craniofacial structures, peripheral neurons, melanocytes, and smooth muscle. Defects in NCC development underlie a broad range of congenital disorders known as neurocristopathies. Human pluripotent stem cell (hPSC)-derived NCCs provide an evaluable model for studying early human development; however, existing differentiation protocols produce variable outcomes, and no standardized method consistently generates high-fidelity NCC populations. To address this challenge, we compared five published hPSC-to-NCC differentiation protocols using the H9 human embryonic stem cell line. We hypothesized that specific protocols more faithfully recapitulate neural crest development through coordinated regulation of …

The Aggregation Of Microplastics By Enhancing Extracellular Polymeric Substance Production In Pseudoalteromonas Sp. Ncimb 2021 To Improve Removal Efficiencies In Environmental Matrices, Janelle L. Mercer

All Theses

Microplastics (MP) are ubiquitous in the natural environment and are a growing threat due to their small size and durability. Plastics are released into the environment through improper waste management, wastewater treatment outfalls, industrial spills, agricultural runoff, and landfills. These particles breakdown into secondary MP through degradation pathways. MP, less than 5 mm, require intricate removal techniques from water systems. Filtration techniques, though viable and effective, have implementation constraints due to high cost, maintenance demands, and filter fouling. By integrating coagulation and flocculation processes prior to filtration, MP removal efficiencies can increase, while minimizing operational challenges during filtration. Extracellular polymeric …

Can Kinematics Specify Tool Use Affordances?, Tyler Duffrin

All Dissertations

Object properties such as length, shape, and heaviness, as well as affordance-based properties such as strike-with-ability and poke-with-ability, can be perceived via dynamic touch as functions of inertia tensor invariants. The primary question addressed here was whether people can perceive these same power and precision properties for purely virtual objects, which lack dynamic physical forces. The Kinematic Specification of Dynamics (KSD) principle asserts that missing dynamics are lawfully specified by kinematic (visual) motion patterns, such that kinematic information alone may support successful interactions with virtual objects. In three experiments, we investigated (1) whether virtual reality (VR) users could calibrate to …

Lizards In The Trees: Structural, Functional, And Behavioral Specializations To A High-Risk Environment, Victor D. Munteanu

All Dissertations

Animals must contend with unexpected changes in their habitat and environment to thrive. Arboreal habitats can consist of a wide variety of environmental features, and failure to adequately contend with these features can result in high risk of injury or death upon falling. Despite these strong selective pressures, many vertebrate lineages have successfully invaded arboreal habitats. Using lizard taxa as a model system, I investigated how morphology and behavior have evolved within this specific habitat transition. I pursued these investigations through complementary analyses including: 1) evaluating the effect of stance height and tail prehensility on perturbation recovery, 2) assessing behavior …

The Past, Present, And Future Of Climate Adaptation In A Widespread Lizard Species, Matthew R. Mcternan

All Dissertations

Climate, as a selective force, shapes patterns of biodiversity globally. However, how species adapt to climate remains a central question of biology. The need to understand climate adaptation is paramount, as global climate change threatens a large portion of global diversity. Climate can impose selection on life by either controlling rates of energy intake and expenditure through effects on body temperature and activity, or by exposing organisms to conditions beyond their physiological limits. Studies of climate adaptation have identified a wide-range of putatively adaptive phenotypic patterns, but genomic evidence is increasingly being used to investigate these patterns and better understand …

Why Technical Readiness Is Not Enough: Institutional Barriers To Full Harvest Strategy Adoption In The International Pacific Halibut Commission, Evelyn Roozee, Owen Temby, Gordon M. Hickey

School of Earth, Environmental, & Marine Sciences Faculty Publications

Harvest strategies are increasingly promoted as a mechanism to reduce political discretion and align fisheries management with pre-agreed scientific objectives. While substantial progress has been made in tuna regional fisheries management organizations (RFMOs), non-tuna RFMOs have lagged behind. Existing research has focused primarily on technical modeling challenges, with comparatively limited attention to the governance dynamics shaping adoption. Using the International Pacific Halibut Commission (IPHC) as an instrumental case study, we examine the progress and delays in the development of a harvest strategy policy (HSP) through semi-structured interviews and participant observation. We find that the IPHC successfully addressed commonly cited barriers, …

Quaking Aspen On Cedar Mountain, Utah: Status And Update, Jaycee Cappaert, Larissa L. Yocom, Paul C. Rogers, Darren J. Mcavoy, R. Justin Derose

Wildland Resources Student Research

Quaking aspen forests are important communities in the western United States where they provide preferential food and habitat for animals, limit wildfires from spreading, and have favorable aesthetics, among other things. Their putative decline is an issue for ecology and management. We remeasured the aspen population on Cedar Mountain, Utah, to assess changes to its condition since it was originally measured in 2008 and laid the groundwork for continued aspen monitoring on Cedar Mountain. Our objectives were to compare current metrics of stand structure and composition, mortality, crown dieback, bole damage, regeneration, and recruitment, to those of the original inventory. …

Agent-Based Modeling Of Cellular Dynamics In Adoptive Cell Therapies, Yujia Wang

Dissertations and Theses (Open Access)

Adoptive cell therapies (ACT) have shown promising progress in combating cancer, but clinical responses remain heterogeneous. Key determinants, including the functional states of infused cells, tumor–immune interactions, and dosing strategies, are difficult to resolve experimentally in the dynamic and heterogeneous tumor microenvironment, limiting optimization of ACT products and treatment regimens. To address the gap, we developed ABMACT (Agent-Based Model for Adoptive Cell Therapies), a computational framework that reconstruct key cellular functions, interactions, and molecular signatures to recapitulate cell population dynamics associated with differential treatment responses. ABMACT encodes autonomous “virtual cells” using literature-informed rules calibrated with experimental data, enabling simulation of …

Oxidative Stress Mediated Glutamate Release And Nmda Receptor-Dependent Synaptic Remodeling In Radiation-Induced Cognitive Dysfunction, Thanh Lam

Dissertations and Theses (Open Access)

In children younger than 14 years old, the brain and other parts of the central nervous system are the most common sites for solid tumors. Radiotherapy is an effective treatment for central nervous system (CNS) tumors. However, it often causes a progressive decline in cognitive functions, which is especially devastating for pediatric patients. Although post-mitotic neurons are generally considered resistant to radiation-induced immediate cell death, ionizing radiation causes complex neurochemical and structural changes that damage synaptic integrity. In this study, we examined the molecular cascades following a 10 Gy radiation dose applied to mouse cortical neurons. We found that radiation-induced …

From Geometry To Recognition: A Quantitative Framework For Tcr-Pmhc Structural Analysis In The Age Of Predicted Structures, Kun Hee Kim

Dissertations and Theses (Open Access)

Recognition of antigen by a T cell begins with a single physical event, the engagement of the T cell receptor (TCR) with a peptide-major histocompatibility complex (pMHC), and this interaction is encoded in the geometry with which the receptor docks onto the composite pMHC surface. Whether that docking geometry is biologically organized, and whether the structures now produced at scale by prediction preserve recognition or only reproduce that organization, are the two questions this thesis addresses. Two gaps stand in the way. The first is a gap of measurement, because docking geometry has never been made quantitatively comparable across many …

Antigen Discovery In Multiple Myeloma Using Integrated Long-Read Transcriptomics And Immunopeptidomics, Aya Albittar

Dissertations and Theses (Open Access)

Multiple myeloma (MM) remains an incurable plasma cell malignancy, with relapse driven by persistent chemotherapy-resistant cells and residual disease following treatment. Although immunotherapies have transformed MM care, their success depends on identifying tumor-specific antigens that can be safely targeted. While aberrant genomic structural variation and transcriptional dysregulation are increasingly recognized as sources of novel antigens in MM, the HLA-presented antigenic landscape of MM remains incompletely characterized, particularly for non-canonical, structurally-derived peptides, and long-read transcriptome-informed immunopeptidomic data specific to MM remain scarce.

We established an integrated antigen discovery platform combining long-read RNA sequencing (Iso-Seq) with mass spectrometry-based HLA immunoprecipitation and immunopeptidomics …

Alfred Russel Wallace Notes 42: How Accurate Are The Transcriptions Presented At The Alfred Russel Wallace Page Website?, Charles H. Smith

Faculty/Staff Personal Papers

A look is taken at the level of accuracy displayed by the transcriptions of Wallace writings offered at the Alfred Russel Wallace Page website, as determined by a ChatGPT analysis.

Optimizing Urban Forestry Through Green Infrastructure: Tree Health And Water Retention In Ciudad Juarez Rain Gardens, Tomas Rogelio Lizarraga Ruiz

Open Access Theses & Dissertations

Urban green spaces (UGS) in arid regions face significant challenges due to water scarcity and extreme thermal demand. This study evaluates the efficacy of Nature Based Solutions (NBS), rain gardens and median strips, in enhancing the physiological resilience of urban trees in Ciudad Juárez, Mexico. Using a comparative framework, the research monitored a native evergreen (Dermatophyllum secundiflorum) and an introduced deciduous species (Morus sp.) across six planting treatments. Statistical analysis reveals that green infrastructure (GI) acts as a critical physiological accelerant. Trees situated within rain gardens and medians significantly outperformed those in restricted pot and sidewalk settings, maintaining higher stomatal …

The Rpm-1/Phr Signaling Hub Modulates Tau-Induced Neurodegeneration Through Regulation Of Microtubule Stability And Mapk Pathways In C. Elegans, Xinxing Ding

Theses and Dissertations

Neurodegenerative diseases, including Alzheimer's disease and frontotemporal dementia, are characterized by the accumulation of pathological tau proteins and progressive neuronal loss. Although research regarding tau-mediated toxicity is extensive, the specific pathology that determine whether neurons maintain homeostasis or succumb to collapse under tau-induced stress remain incompletely elucidated. A central, yet still insufficiently understood, feature of these diseases is the disruption of the microtubule (MT) cytoskeleton . The PHR protein family is evolutionarily highly conserved; within this family, RPM-1 in C. elegans functions as an intracellular signaling hub that regulates axon development, synapse formation, axon termination, and various microtubule-associated processes. This …

The Effect Of Cerebellar Transcranial Direct Current Stimulation On Anxiety, Shivangi Bhardwaj

All-Inclusive List of Electronic Theses and Dissertations

Anxiety is one of the most prevalent mental health disorders in the U.S. Individuals of all ages are affected by anxiety. Therefore, research into anxiety and its potential treatment has constantly been an area of interest. Newer approaches to managing anxiety include non-invasive stimulation techniques, such as Transcranial Direct Current Stimulation (tDCS), because of its accessibility and effectiveness. Past tDCS work typically focused on regions in the frontal lobe. However, tDCS over the cerebellum has not received as much attention compared to the cerebrum, despite recent work demonstrating cerebellar involvement in emotion processing. Thus, a better understanding of how cerebellar …

Machine Learning In Flow Cytometry For Acute Myeloid Leukemia Diagnosis: A Scoping Review, Katrina Jezzela M. Dela Pena Md, Mls (Ascp)

Other Specialties

Manuscript version:

Introduction: Flow cytometry is essential for the diagnosis of acute myeloid leukemia (AML), but conventional analysis is labor-intensive, operator-dependent, and increasingly complex. Machine learning (ML) may support automated analysis; however, its readiness for clinical implementation remains unclear. This scoping review mapped ML approaches applied to flow cytometry for AML-related diagnosis.

Methods: PubMed was searched for English-language primary studies applying artificial intelligence, ML, or deep learning to human flow cytometry data for AML diagnosis or classification. Eligible studies reported diagnostic performance metrics. Study characteristics, preprocessing, data representation, model architecture, validation strategy, performance metrics, interpretability, and implementation considerations were descriptively …

An Evaluation Of Peer Mentoring In A Pre-Veterinary Science Program Within A College Of Forestry And Agriculture, Amy Neal

Electronic Theses and Dissertations

Mentoring is a tool utilized to improve the retention of college students and can serve as an effort to increase their willingness to persist despite challenges. Establishing mentoring relationships amongst first-year students and more-experienced students can create a sense of belonging. Mentorship programs may be developed within a particular major or program. Within this study, an online survey was formed to analyze the perceptions of first-year pre-veterinary students in Fall 2024 and Fall 2025. A peer-mentorship program was implemented amongst pre-veterinary students in Fall 2025. First-year students who completed the survey in Fall 2024 were not mentored. Many of the …

Forest Cover Effects On Canopy Interception Loss, Evapotranspiration, And Soil Infiltration On Stormwater Detention Basins, Alexandria N. C. Perez

Electronic Theses and Dissertations

Developing cities and increased impervious surfaces has resulted in more surface runoff and severe flooding. Harris County, Texas has experienced major flooding events, such as Hurricane Harvey in 2017 which was estimated to be a 9,000-year flood event. The Harris County Flood Control District (HCFCD) is dedicated to creating, maintaining, and finding new ways to reduce flooding damage such as the use of detention basins as green infrastructure. These basins are either populated by grass or are planted with various tree species. This study will identify the planted trees’ canopy interception loss, reference evapotranspiration, and enhanced soil infiltration effects within …

Examining Pain Catastrophizing, Mental Toughness, Self-Efficacy, And Perceived Pain In The Performance Of Female Athletes During Their Menstrual Cycle, Carissa R. Martinez

Electronic Theses and Dissertations

Pain is a universal unpleasant or negative experience influenced by physiological, psychological, and environmental factors. Disruption in the neural pathways of pain can affect athletic performance and lead to injury risks. Both negative attributes, such as stress, anxiety, and depression, and positive attributes, such as mental toughness and self-efficacy, contribute to pain perception and catastrophic thinking. The menstrual cycle also plays a critical role in pain catastrophizing, as hormonal fluctuations across different phases may hinder pain perception and performance in female athletes. However, research lacks the inclusion of how these factors impact female athletes. Using a non-experimental quantitative analysis, this …

Harnessing Kenyan Aquaculture Through Social Media: Impacts, Challenges And Strategic Directions, Domitila Kyule, Jonathan Munguti, Mavindu Muthoka, Esther Magondu, Menaga Meenakshisundaram, Chrysantus M. Tanga, Kevin Obiero, Cecilia Githukia

All Peer-Reviewed Publications

Aquaculture is increasingly important for food, nutrition and livelihoods in Kenya, but the sector still faces persistent constraints in extension delivery, farmer learning, input access, market coordination and information reliability. This review examines how social media and related digital communication tools are shaping aquaculture development in Kenya, with attention to impacts, challenges, governance needs and strategic directions. A systematic literature review of studies and institutional sources published between 2015 and 2025 was conducted. The search identified 388 records, of which 45 sources were included in the final synthesis after screening, eligibility assessment and quality appraisal. Because the evidence was heterogeneous, …

A Comparison Of Ahdrift And Pitfall Traps For Surveying Small Vertebrates, Gabrielle Risko

All-Inclusive List of Electronic Theses and Dissertations

Understanding species occupancy is necessary to inform wildlife management and conservation decisions. To minimize the invasiveness of occupancy studies, some wildlife researchers have deployed game cameras to detect the presence of small vertebrates instead of utilizing stressful traditional live-capture methods. The Adapted Hunt Drift Fence Technique (AHDriFT) is an increasingly popular method for modifying and deploying camera traps to detect small vertebrates; however, no studies have directly compared AHDriFT to traditional pitfall traps operating at the exact same time, even though both are deployed along drift fences to capture small vertebrates. I compared these two methods (pitfall trapping and AHDriFT …

Reconstruction Of Copepod Populations In Sierra Nevada Lakes Using The Diatom Fragilaria Cyclopum, Rorie Reisner

All-Inclusive List of Electronic Theses and Dissertations

Copepods are one of the most abundant types of zooplankton, and their populations are often a vital part of the food chain, but their past populations cannot be estimated from lake sediments because their exoskeleton usually does not fossilize. Gull Lake is a glacial lake located in the subalpine region of the Sierra Nevada, California, which stands out due to the presence of the diatom Fragilaria cyclopum, which is rarer in diatom assemblages. Fragilaria cyclopum exclusively grows on copepods in lakes. Diatoms have an opaline silica skeleton that often fossilizes in lake sediments, so we can use this relationship with …