Digital Commons Network^™

From Sequencing To Conservation: Genomic Analysis Of Three Sportfish Species In West Virginia, Andrew Johnson

Graduate Theses, Dissertations, and Problem Reports (ETD)

Situated in the Appalachian Mountains, one of the oldest mountain ranges on Earth, West Virginia waters boast rich ichthyofauna including native sportfish species walleye (Sander vitreus), largemouth bass (Micropterus nigricans), and muskellunge (Esox masquinongy). These three species are all native to the contemporary Ohio River watershed and play a major recreational and ecological role in local fisheries. Ecologically, all three species are apex predators and play a key role in ecosystems by directly influencing local fish assemblages. As dominant apex predators all three species are highly sought after in recreational fisheries with largemouth bass …

The Dna Methylation Capacity Of The Tsetse Fly: Glossina Morsitans, And Its Integration With Symbiont Nutrient Provisioning, Dylan Forrest Richmond

Graduate Theses, Dissertations, and Problem Reports (ETD)

Tsetse flies (Diptera: Glossinidae) are the vector of trypanosomes (Trypanosoma spp.), which are responsible for African trypanosomiasis, also known as sleeping sickness. African trypanosomiasis is a significant health and economic burden yet remains a neglected tropical disease. As an obligate blood feeder, tsetse flies are reliant on B vitamin supplementation from intracellular Gammaproteobacteria, Wigglesworthia glossinidia. Folate (B9) is essential for tsetse development and reproduction, as well as DNA methylation in animals. As a reversible modification, DNA methylation typically occurs in a CpG dinucleotide context and can alter gene expression via the restriction of transcription. Across insects, the …

Exploring The Ruminal Microbiome And Its Impacts On Feed Efficiency In Beef Cattle, Taylor Simone Sidney

Graduate Theses, Dissertations, and Problem Reports (ETD)

The ability for beef cattle to utilize feed efficiently is a critical determinant for both economic and environmental sustainability in livestock production. However, despite extensive research, the complex microbial ecosystem within the rumen and its relationship to feed efficiency remain incompletely understood. This dissertation explores the physiological and microbial foundations of feed efficiency by characterizing how rumen microbial communities and their functions differ among beef cattle with divergent residual feed intake (RFI) phenotypes and how the RFI status of beef cattle influenced their response to dietary interventions such as supplementation with a Bacillus-based feed additive. In the first study, …

Parameter Estimation Of A 100 Seater Simulated Passenger Aircraft, Michael James Winston

Graduate Theses, Dissertations, and Problem Reports (ETD)

Virtual flight test aircraft provide good opportunities to test new parameter estimation methods. However, good estimates for the parameters in VIRTTAC Castor, a virtual test aircraft, are unavailable. This thesis uses two well-established time domain methods, the Output Error Method and the Filter Error Method, to estimate the parameters of VIRTTAC Castor. Three standard maneuvers were used: Elevator 3-2-1-1, Rudder Doublet, and Aileron Multi-Step. The parameters were estimated across three different flight conditions: weight, altitude and air speed, which resulted in 27 tests for each maneuver. All parameters, and standard deviations estimated are included in the appendix as a table.

Comparative Analysis Of Chemical Compounds And Metal Contaminants In Medical Grade Versus Over-The-Counter Sodium Hypochlorite Solutions, Abdulrahman Essaedi

Graduate Theses, Dissertations, and Problem Reports (ETD)

Introduction:

Abstract

Endodontic treatment aims to prevent or address apical periodontitis by reducing intracanal bacterial populations to promote tissue healing, requiring thorough debridement and disinfection of the canal space. This study aims to examine the presence of trace metal elements and chemical compounds in over-the-counter (OTC) and medical-grade sodium hypochlorite (NaOCl) solutions.

Method

Over-the-counter NaOCl brands (Clorox® and Great Value®) and medical grade 6% NaOCl solutions (CanalPro® and Chlor-Xtra®) were purchased, stored in amber glass bottles, and tested in triplicate. Each was analyzed using mass spectrometry, identifying 7881 chemical compounds with statistical comparisons via adjusted p-values, fold-change, and heat maps. …

Cleaning And Characterization Of Chemical Vapor Deposited Graphene For Nanoelectronic Device Development, Sakib Ishraq

Graduate Theses, Dissertations, and Problem Reports (ETD)

Nanoelectronic devices based on graphene are a promising technology that combines the sensitivity and specificity of ion and element recognition with the accuracy and precision of electronics. The detection principle is based on the interaction of the target molecules with the nanodevice surface, which generates a measurable electrical signal. In the current study, graphene and its derivatives, synthesis and fabrication of high quality, good uniformity, and low defects graphene have been investigated as they are critical for high-performance and highly sensitive devices. Among many synthesis methods, chemical vapor deposition (CVD), have been used that needs to be transferred from the …

Biology And Ecology Of Neonectria Magnoliae And Neonectria Punicea, Two Understudied Neonectria Species In West Virginia, Hannah Marie Petronek

Graduate Theses, Dissertations, and Problem Reports (ETD)

The family Nectriaceae includes numerous phytopathogenic fungi that cause canker diseases on both angiosperm and conifer hosts worldwide. Numerous Neonectria spp. cause cankers on hardwoods and conifers in North America, but their roles in contributing to tree decline and mortality outside of beech bark disease are largely understudied. One such pathogen, Neonectria magnoliae, causes perennial cankers on two native hosts in central Appalachia: Fraser magnolia (Magnolia fraseri) and tulip-poplar (Liriodendron tulipifera). We also recently confirmed N. magnoliae from non-native star magnolia (Magnolia stellata) in West Virginia. Both native hosts occur in the central …

Enhancing Pipeline Simulations Through Artificial Intelligence And Machine Learning: A Smart Proxy Modelling Approach, Afeez Shittu

Graduate Theses, Dissertations, and Problem Reports (ETD)

ABSTRACT

Enhancing pipeline simulations is essential for improving operational efficiencies and effectively managing risks in the oil and gas industry. Traditional pipeline simulators, relying heavily on mathematical modeling assumptions, often face limitations due to their high energy and computational demands. This thesis addresses these challenges by introducing an innovative approach that integrates artificial intelligence (AI) and machine learning (ML) through a smart proxy model, offering a more efficient, cost-effective, and flexible alternative to conventional full-physics models used in pipeline simulation software.

The primary aim of this research is to develop and implement a smart proxy model capable of accurately predicting …

Comparing Resurgence Following Positive And Negative Reinforcement Using A Human-Operant Approach, Abbie Cooper

Graduate Theses, Dissertations, and Problem Reports (ETD)

Resurgence is a type of relapse that consists of the recurrence of a previously eliminated response following worsening reinforcement conditions for an alternative response. Resurgence can occur following a history of positive or negative reinforcement; however, no previous evaluations have directly compared resurgence following these processes. In the present set of experiments, college students responded on a computer program to earn points (positive reinforcement) and to avoid losing points (negative reinforcement). Experiment 1 evaluated resurgence when both target and alternative responses were maintained by the same reinforcer class (i.e., in the positive-reinforcement component the target and alternative responses were positively …

Clinical Significance Of Gutta Percha Variability, Alex R. Pancake

Graduate Theses, Dissertations, and Problem Reports (ETD)

Introduction: The production of gutta percha points as root canal therapy filling materials vary from hand processing to machine processing with a range of acceptable levels of error (tolerance). Similarly, endodontic files manufactured to complement corresponding gutta percha points exhibit specified levels of tolerance. Investigations into the consistency among manufacturers of files and gutta percha points is limited. The aim of this study is to see how variability in apical gauge and taper of gutta percha points affected the clinical performance during cone try in. The null hypothesis of this study is that there is no difference in two gutta …

Building Better Biofuel Crops: A Field Evaluation Of Transgenic Populus Modified To Improve Feedstock Performance For Bioenergy Use, Molli Elisabeth Coombs

Graduate Theses, Dissertations, and Problem Reports (ETD)

A transition away from fossil fuel use is necessary for the future of energy production, and biofuels are a renewable energy option that can mitigate the impacts of fossil fuels through lowered carbon emissions and possible carbon sequestration. In order to successfully compete with fossil fuels, the production of biofuels must be sustainable and cost effective. Populus species are a biofuel crop used for bioenergy conversion from lignocellulosic biomass that have been proposed for use in feedstock plantations on marginal lands, which would avoid competition with agricultural production. Two challenges of feedstock production being faced are recalcitrance to chemical processing, …

Enhancing Reservoir Modeling And Simulation Through Artificial Intelligence And Machine Learning: A Smart Proxy Modeling Approach, Andrew Timothy Jenkins

Graduate Theses, Dissertations, and Problem Reports (ETD)

The application of numerical reservoir simulation (NRS) has been a common approach within the oil and gas industry for decades, providing a means to model and forecast dynamic subsurface interactions, as a basis for reservoir management and development decisions. These techniques have expanded to application within carbon capture utilization and storage (CCUS) projects as domestic and global policy shift towards reducing carbon emissions while maintaining the energy needs of our modern society. NRS techniques have become a core process for permitting approval in Class VI (large-scale geological sequestration) wells due to the fundamental similarity of these types of subsurface processes. …

Reconstructing Δ14c Production Events Using Tree Rings: Does Tree Physiology Affect Estimates Of Atmospheric Δ14c?, Meagan Rory Walker

Graduate Theses, Dissertations, and Problem Reports (ETD)

Cosmic rays and solar energetic particles (SEP) bombard the Earth’s geomagnetic field, posing a threat to satellites, space stations, and human space exploration. These rays and particles also produce radiocarbon (¹⁴C) in Earth’s atmosphere, thus records of past ¹⁴C concentration in the atmosphere may be indicative of past cosmic and solar activity. Rapid increases in the concentration of atmospheric radiocarbon ¹⁴C, (Miyake events) first identified in tree rings, are thought to be a result of solar eruptive activity triggering the release of solar energetic particles, though the precise nature of past events remains unresolved. The first …

Implementation Of Bayesian Statistics To Answer Diverse Engineering Questions: Applications In Cancer Immunology And Engineering Education, Anika C. Pirkey

Graduate Theses, Dissertations, and Problem Reports (ETD)

Quantitative Systems Pharmacology (QSP) refers to a mechanistic modeling approach used for assessing potential therapeutics by linking the molecular and cellular level mechanisms of the disease and therapeutic to the system-wide dynamics and clinical endpoints relevant to the disease. Although the field of QSP is still in its relative infancy, the mathematical methodology employed to predict the kinetics of these systems are not new and can be applied to a wide variety of systems. For instance, similar to QSP’s goal of guiding the development of novel therapeutics for various disease states, there exists a need to develop novel interventions in …

Additive-Dependent Regioselective Boracarboxylation Of Alkenes Using Low Valent Copper And Co2, Carly H. Gordon Ph.D.

Graduate Theses, Dissertations, and Problem Reports (ETD)

As a major greenhouse gas, carbon dioxide (CO₂) is an abundant and renewable C₁ feedstock, and developing methods for fixing CO₂ into high-value products is a major interest for the movement of greener chemistry. The boracarboxylation of alkenes provides access to difunctionalized products containing pharmaceutically relevant motifs, including carboxylic acids and boron-containing moieties. Significant work has been done to improve the versatility and efficiency of this methodology, with the recent expansion into a wide variety of terminal alkenes. The use of different phosphine and alkene additives have demonstrated positive effects on reaction rates and productivity, indicating …

Inherently Porous Metal Structures With Sufficient Mechanical Properties Through Direct Writing Of Bio-Based Inks, Havva Eda Aysal

Graduate Theses, Dissertations, and Problem Reports (ETD)

There is currently a burgeoning interest in developing 3D printed metal structures with inherent porosity and sufficient mechanical properties for mass customization in the biomedical field. Current approaches for 3D printing of biocompatible metals rely on powder-bed fusion methods which are energy intensive and utilize large amounts of metal powder that is challenging to recycle. In addition, such methods aim on producing dense parts and porosity generation, within the printed part, is challenging due to the complex physics of the melting pool. Here, a relatively new and promising approach is undertaken to study the 3D printing of inherently porous structures …

Genetic Knowledge And Causal Beliefs: Implications For Health Behavior In Clinical And Non-Clinical Samples, Jamey T. Brumbaugh

Graduate Theses, Dissertations, and Problem Reports (ETD)

Objective: As the genomic era in healthcare continues to surge, it is vital to examine genetically-related psychological concepts, such as genetic knowledge and genetic causal beliefs, in genetically relevant clinical groups. Parents /caregivers of children born with cleft lip and/or palate represent a population whose knowledge and beliefs about genetics may be influenced by their frequent utilization of genetically-related healthcare services (e.g., genetic testing and genetic counseling). To date, little is known about how such beliefs vary across disease types. Even less is known regarding how disease-specific genetic causal beliefs relate to perceived behavioral control for disease development. Method: A …

Risk Of Parasiticides To Dung-Associated Beetles In West Virginia, Haylie J. Brown

Graduate Theses, Dissertations, and Problem Reports (ETD)

Ecosystem services provided by dung-associated beetles, such as reducing pasture fouling, parasite suppression, supporting nutrient recycling, and increasing water infiltration, contribute to animal and pasture health. However, parasiticides used to manage cattle parasites, particularly flies and helminths, in West Virginia, can adversely affect these non-target beetles. We assessed the exposure and impact of some parasiticides used in WV including Clarifly^® (active ingredient [a.i.] diflubenzuron), Cydectin^® (a.i. moxidectin), LongRange^® (a.i. eprinomectin), and Safe-guard^® (a.i. fenbendazole). In Chapter 1, we review the use of parasiticides in the US and their non-target effects on beneficial dung-associated beetles. In Chapter …

Testing A Conceptual Model Of Age, Gender, Perceived Discrimination And Well-Being, Kelly Smith

Graduate Theses, Dissertations, and Problem Reports (ETD)

Both age and gender are personal characteristics that are at least in part outwardly visible and act as a category for social judgments (Cuddy & Fiske, 2002). The current study examined associations among individuals’ views on their aging, their gender typicality, well-being, and perceived discrimination. Research Question 1 asked whether views on aging and gender typicality interact to influence perceptions of discrimination; Research Question 2 explored the same potential interactions’ influence on well-being. Research Question 3 explored whether any interaction between views on aging and gender typicality and well-being was mediated by perceptions of discrimination. Participants represented the adult life …

Lgbtq+ Clothing Habits In Appalachia, Kirstyn Korte

Graduate Theses, Dissertations, and Problem Reports (ETD)

This study investigated clothing preferences among cisgender queer women within Appalachia and whether they used these preferences to identify their own peers. It also further investigated whether they use clothing as a tool to conceal or reveal their own LGBTQ+ identity. Participants were invited for two interviews each. Between interviews, there was a one-week rumination period for each woman. The women reported themes of using clothing to blend in with their hetero-normative surroundings as they grew up and now lean into a more alternative style and less narrow-minded view of clothing. Perspectives gained from interviewees lined up with current knowledge …

Studies In Nonlinear Chemical Dynamics Of Propagating Precipitation Waves, Md Boshir Ahmed

Graduate Theses, Dissertations, and Problem Reports (ETD)

This dissertation explores the intricate dynamics of pattern formation in nonlinear chemical systems, specifically focusing on the phenomena of propagating waves and Liesegang patterns in aluminum and zinc hydroxide systems. Through a combination of experimental setups and theoretical models, the study delves into the mechanisms driving these patterns, providing insights into their formation, evolution, and underlying principles.

The research begins with an introduction to nonlinear dynamics and pattern formation, emphasizing the significance of these concepts in understanding complex natural systems. It then moves into a detailed examination of Liesegang bands, discussing classical and reverse systems, and introducing the redissolution process …

Regulation Of Diabetic Cardiomyopathy Through Mitochondrial Import Of Long Non-Coding Rnas, Andrew Dodge Taylor

Graduate Theses, Dissertations, and Problem Reports (ETD)

Introduction: The leading cause of mortality in patients with diabetes mellitus is heart failure. When mitochondrial health and function is disrupted, cardiac contractile function is compromised. Therefore, understanding mitochondrial regulation may benefit predicting and countering diabetic cardiomyopathy. MicroRNAs (miRNAs) play a crucial role in diabetic cardiac mitochondrial protein expression. Long noncoding RNAs (lncRNAs) have been shown to regulate miRNAs, but not in the mitochondrion. Additionally, it has yet to be confirmed if lncRNAs utilize the same mechanisms for mitochondrial import that miRNAs use, or if lncRNA presence in the mitochondrion fluctuates in diabetic mitochondria like miRNA presence does. The …

Astrocyte Reprogramming By Th17 Cells In Autoimmune Neuroinflammation: Mechanisms And Implications, Sarah Marie Milne

Graduate Theses, Dissertations, and Problem Reports (ETD)

Multiple sclerosis (MS) is a cell-mediated, demyelinating autoimmune disease that affects the central nervous system (CNS). T helper (Th) 17 cells mediate the pathogenesis of MS and its animal model, experimental autoimmune encephalomyelitis (EAE), in part by infiltrating the CNS and interacting with astrocytes, a resident glial cell. Astrocytes are central to coordinating several inflammatory processes in the CNS and can respond to cytokines and chemokines produced by encephalitogenic Th17 cells. Pathogenesis of MS and EAE requires the infiltration of immune cells from the periphery, including autoreactive T cells, B cells, monocytes, and neutrophils, that lead to neuroinflammation, demyelination, and …

Multidisciplinary Approach To Injury Rehabilitation: The D1 College Athlete Perspective, Lindsey Leatherman

Graduate Theses, Dissertations, and Problem Reports (ETD)

Sport injuries continue to be unavoidable disruptions in student-athletes’ athletic careers with over 200,000 injuries estimated to be reported each year in college sport (Kerr et al., 2015). Researchers continue to emphasize the importance of an interprofessional approach to rehabilitation to help athletes manage the adverse psychological and emotional reactions to injury (Appaneal et al., 2009; Gervis et al., 2020; Putukian, 2016). The purpose of this study was to extend and replicate the research of Clement and Arvinen-Barrow (2021) by incorporating perspectives of Division I US student-athletes. The current study describes 321 NCAA Division I collegiate athletes’ experiences of receiving …

Development Of Lab-On-A-Chip Platforms Incorporating A Novel Acoustic Atomization Induced Pump Based On A Vibrating Sharp Edge Capillary., Balapuwaduge Lihini Tharanga Catherine Mendis

Graduate Theses, Dissertations, and Problem Reports (ETD)

Capillary Vibrating Sharp-edge Ionization device (cVSSI device) was developed by our laboratory with a low cost and an easy fabrication procedure. The generation of small liquid droplets by this technique has been used as an ionization source for mass spectrometry analysis platforms. On usual applications incorporating the cVSSI device a syringe pump was connected to the back end of the vibrating sharp tip capillary to ensure continuous loading of sample into the capillary to sustain the ionization process at the tip end of the vibrating sharp tip capillary. We were able to observe that upon the generation of droplets the …

Personalized Molecular Therapies For Advanced Non-Small Cell Lung Cancer: Overcoming Heterogeneity To Optimize Treatment Response And Clinical Outcomes, Zuan-Fu Lim

Graduate Theses, Dissertations, and Problem Reports (ETD)

Lung cancer remains one of the deadliest cancers. Novel, paradigm shifting treatments including immunotherapy and targeted therapies have recently been developed to cull the deadly effects of lung cancer, but many challenges remain. There remains a significant unmet need to accurately predict and optimally select for patients who will respond to immune checkpoint inhibitors (ICI) treatment. In Chapter 2 of this dissertation, we investigated a novel live single cell cytokine profiling lab-on-chip platform, IsoLight, using peripheral CD4+ and CD8+ T-cells for ICI biomarker development. A total of 55,175 single T-lymphocytes were analyzed in this proof-of-concept study. We found that an …

Investigation Of The Ecological Interactions And Host Specificity Of Verticillium Nonalfalfae, A Proposed Biological Control Agent Against The Invasive Tree-Of-Heaven (Ailanthus Altissima), Kristen H. Pierce

Graduate Theses, Dissertations, and Problem Reports (ETD)

Tree-of-heaven (Ailanthus altissima) is a highly invasive tree species with a cosmopolitan distribution, including an expansive range in North America. In the U.S., tree-of-heaven has established populations in more than 40 states and is considered among the most notorious of invasive plant species. The discovery of Verticillium nonalfalfae and V. dahliae causing acute wilt and mortality of Ailanthus in the mid-Atlantic in the 2000s has resulted in numerous studies evaluating the utility of these fungi as potential biocontrol agents. Recent efforts to commercialize V. nonalfalfae have raised additional questions about its widespread use and factors influencing long-term efficacy. …

Changes In Psychiatric Diagnosis Associated With Sars-Cov-2 Infection And Predicting The Development Of New Psychiatric Illness In Covid Patients By Using Machine Learning Approach: A Study Using The Us National Covid Cohort Collaborative (N3c), Asif Rahman

Graduate Theses, Dissertations, and Problem Reports (ETD)

The enduring impact of COVID-19 extends beyond acute illness, with potential long-term psychiatric consequences raising significant concern among healthcare professionals and researchers alike. Emerging evidence suggests a multifaceted relationship between COVID-19 and the development of different psychiatric illnesses like Schizophrenia Spectrum and Psychotic Disorders (SSPD), Depression, Bipolar disorder, Personality disorder, Trauma, and a range of other mental health conditions. Considering these emerging connections, our study endeavors to rigorously assess the associations between COVID-19 and various psychiatric illnesses while simultaneously employing machine learning techniques to predict the development of new psychiatric disorders in individuals affected by the virus. Leveraging the extensive …

The Identification And Characterization Of Novel And Improved Antigens For Next-Generation Pertussis Vaccines, Gage Michael Pyles

Graduate Theses, Dissertations, and Problem Reports (ETD)

Whooping cough, or pertussis, is a highly infectious respiratory disease caused by infection with the Gram-negative bacterial pathogen Bordetella pertussis. Pertussis affects all age groups and populations; however, it is most severe in infants who are too young to receive vaccinations and remains a global health concern with more than­­­­ 200,000 cases reported globally in 2023. Vaccines against pertussis have been available in the United States since the 1940’s with the development and widespread use of whole cell pertussis vaccines. Following their introduction, the incidence of pertussis was controlled and limited to fewer than 5,000 cases per year. Despite …

Beccaria, The Executioner, And The French Revolution, Willa Carlyle Reising

Graduate Theses, Dissertations, and Problem Reports (ETD)

This thesis explores ideas and practices in the French penal system during the Revolutionary era, especially during the Reign of Terror, considering the experiences of Revolutionary leaders and the executioner of Paris during the Revolution. It argues that while in some ways Revolutionary leaders used Enlightenment penal laws to justify their actions during the Reign of Terror, in other ways the Reign of Terror was a departure from Enlightenment penal reform laws. The main Enlightenment penal reformer which this thesis uses is Cesare Beccaria because he was influential in France and during the French Revolution in helping to create early …