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Morphological, Physiological, And Transcriptional Responses Of Populus Trichocarpa To Water Deficit Stress, Kristin Justine Ratliff

Graduate Theses, Dissertations, and Problem Reports (ETD)

Under the threat of climate change with continued fossil fuel use, investment in developing renewable energies is increasingly important. One category of renewable energy sources, biofuels, is well suited to industries that require a liquid fuel source. However, producing biofuel feedstocks is challenging from a sustainability perspective, as they require extensive land area and resource input to grow on marginal lands. The identification of strategies that feedstock species use to maintain productivity with limited to no resource inputs could aid in the selection of optimal genotypes or targets of breeding or engineering efforts to maximize productivity in feedstock plantations. Some …

Sex Differences In Endothelial Function, Metabolism, And Sleep: Responses To Disrupted Circadian Rhythms, Olga Hecmarie Meléndez-Fernández

Graduate Theses, Dissertations, and Problem Reports (ETD)

Circadian rhythms are endogenous cycles that recur approximately every 24 h, and manifest in virtually every physiological and behavioral process among the vast majority of organisms. These rhythms, sustained by the central circadian clock, the suprachiasmatic nucleus (SCN) of the hypothalamus, allow for optimal timing of biological processes that ensure organisms’ homeostasis, and are entrained to precisely 24 h by daily exposure to light. Disruption of the molecular mechanisms that drive these rhythms have negative consequences on physiology and behavior that may impair survival. The molecular mechanisms that underlie these effects are widely studied and linked to multiple diseases and …

Quantifying The Impacts Of Genetically Engineered Crops And Deep Soil C Cycling On The Sustainability Of Bioenergy Crop Production, Zoe Pagliaro

Graduate Theses, Dissertations, and Problem Reports (ETD)

Bioenergy can help mitigate climate change by providing a carbon-neutral fuel source. However, multiple challenges exist to achieving carbon neutrality including converting lignocellulosic materials to fuel and enhancing soil C sequestration during the growth of the feedstocks. To address these challenges, there have been recent efforts to genetically modify feedstocks to produce more energy dense oils that increase fuel conversion efficiency and to cultivate deep-rooted perennial feedstocks that can enhance soil C storage. However, the C consequences and efficacy of these solutions remain largely uncertain.

To examine the C consequences of enhancing oil content of bioenergy feedstocks, I examined the …

Exploring The Biological Basis Of Residual Feed Intake In Beef Cattle Using Multi-Omics Analysis., Godstime Ayobami Taiwo

Graduate Theses, Dissertations, and Problem Reports (ETD)

Efficient feed utilization is critical for both economic sustainability and environmental responsibility in modern livestock production. While there has been extensive research, the multifaceted nature of feed efficiency remains complex, with many biological factors still unexplored. This dissertation examines the physiological foundations of feed efficiency by elucidating some of the complex biological mechanisms associated with residual feed intake (RFI) phenotype in beef cattle, using a range of Omics approaches. We hypothesized that metabolites related to amino acids, carbohydrates, and fatty acids could act as potential biomarkers for RFI. Through a chemical group-based metabolomics method, we identified enriched pathways in feed-efficient …

Measuring And Modeling How Plant-Microbe Interactions Control Soil Carbon And Nitrogen Cycling In Managed And Unmanaged Ecosystems, Joanna Ridgeway

Graduate Theses, Dissertations, and Problem Reports (ETD)

Our understanding of how plant-microbe interactions regulate carbon (C) and nitrogen (N) retention in soil organic matter (SOM) remains uncertain. Conflicting evidence suggests that microbial decomposition can lead to the loss of unprotected particulate SOM, but also that microbial decomposition produces simpler compounds that preferentially form more persistent aggregate- or mineral-protected SOM pools. Further, uncertainty remains in how plant-microbe interactions alter SOM retention in these different pools through litter chemistry controls on microbial decomposition traits and rhizosphere priming. As a result, this uncertainty limits our ability to sustainably manage ecosystems and understand future feedbacks between terrestrial ecosystems and the global …

Glial Cell-Specific Contribution Of Pkr-Like Er Kinase (Perk) In Neuroinflammation And Behavior, Anirudhya Lahiri

Graduate Theses, Dissertations, and Problem Reports (ETD)

Neurological disorders such as multiple sclerosis (MS) are a major public health concern in the US, with no available therapeutic cure. Chronic neuroinflammation and aberrant proteostasis in the central nervous system (CNS) are the major hallmarks of neurological diseases. Endoplasmic Reticulum (ER) is a major cellular organelle involved in protein synthesis, folding and maturation of various secretory and transmembrane proteins. Pathophysiological stressors such as trauma and infection result in misfolded protein accumulation in the endoplasmic reticulum (ER) lumen, which results in ER stress. To regain proteostasis (protein homeostasis), cells activate the unfolded protein response (UPR). UPR is an evolutionarily conserved …

Xanthine Oxidase-Induced Vascular Dysfunction In Nano-Tio2 Inhalation, Xena Marie Williams

Graduate Theses, Dissertations, and Problem Reports (ETD)

Inhalation of nano-TiO₂ is linked to adverse clinical outcomes that affect people worldwide, particularly those who work in manufacturing. For example, cardiovascular consequences and changes in microvascular responses are, in part, associated with exposure to engineered nanomaterials such as nano-TiO₂; however, the mechanism(s) driving this process is unknown. Nano-TiO₂ is an engineered nanomaterial (ENM) that is reported to, upon inhalation, impair endothelium-dependent vasodilation in several vascular beds via enhanced local oxidant generation and diminished nitric oxide bioavailability. This dissertation aims to address the health concerns generated by occupational exposure to nano-TiO₂ and identify a link …

Heat Shock Protein 90 (Hsp90) System In Health And Disease., Daniella Munezero

Graduate Theses, Dissertations, and Problem Reports (ETD)

Cells rely on heat shock proteins (HSP) to facilitate and regulate the folding of the substrate proteins into their native state, and degradation if misfolding cannot be prevented. HSP90, a member of the HSP family, is a potential target for treatment of cancer and neurodegenerative diseases. Unfortunately, several clinical trials for cancer treatment have been discontinued due to cell toxicity accompanying HSP90 inhibition. HSP90 has four distinct but structurally similar paralogs. HSP90 inhibitors target all the paralogs despite increasing proof of functional differences among the paralogs. Understanding the in vivo function of HSP90 and the role played by each paralog …

Development Of Novel Mass Spectrometry Method For The Analysis Of Complex Compounds, Jing Wang

Graduate Theses, Dissertations, and Problem Reports (ETD)

As mass spectrometry methods continue to advance, there is a growing need for innovative interfaces that can seamlessly integrate sample pretreatment, separation, and ionization, allowing for direct mass analysis while maintaining a simple and flexible system. The evolution of ambient ionization techniques has made it feasible to nebulize analyte compounds at ambient pressure. Moreover, single-cell proteomics using mass spectrometry is gaining increasing attention, necessitating the development of precise sample preparation techniques to enhance sensitivity. In this dissertation, I demonstrate the novel mass spectrometry system to couple the sample pretreatment with the direct mass spectrometry detection for the analysis of diverse …

Evaluating Innovative Methods Of Quantitatively Linking Microbial Community Structure To Ecosystem Function, Jeth Gv Walkup

Graduate Theses, Dissertations, and Problem Reports (ETD)

Microbial functional diversity is the product of community structure and intraspecific trait variation. Due to microbial diversity and limited availability of microbial trait measurements, it has been challenging to quantitatively link community structure to microbial function. Although community-level activity rates vary with community composition, issues in the scale of their measurement inhibit our understanding of their relationship. Quantitative stable isotope probing (qSIP) is a method for quantitatively measuring taxon-specific microbial traits, providing new opportunities to apply trait-based approaches for studying microbial ecology. Quantitative microbial trait data from these experiments enables the functional characterization of microbial communities, potentially enabling the extrapolation …

Localization Of People In Gnss-Denied Environments Using Neural-Inertial Prediction And Kalman Filter Correction, Lauren N. Cash

Graduate Theses, Dissertations, and Problem Reports (ETD)

This thesis presents a method based on neural networks and Kalman filters for estimating the position of a person carrying a mobile device (i.e., cell phone or tablet) that can communicate with static UWB sensors or is carried in an environment with known landmark positions. This device is used to collect and share inertial measurement unit (IMU) information — which includes data from sensors such as accelerometers, gyroscopes, and magnetometers — and UWB and landmark information. The collected data, in combination with other necessary initial condition information, is input into a pre-trained deep neural network (DNN) which predicts the movement …

Gut-Lung Axis Of The Microbiome Alterations After Ultrafine Particles And Ozone Inhalation, Md Habibul Hasan Mazumder

Graduate Theses, Dissertations, and Problem Reports (ETD)

Air pollution poses a significant threat to public health. It is a mixture of particulate matter, gaseous substances, and other secondary substances. Despite epidemiological research indicating the interactive effects of various components of air pollution, existing studies and regulatory limits often focus on single-exposure scenarios. The emerging understanding of the microbiome’s role in regulating immune response, metabolism, and pathophysiology of various diseases points towards interactions between environmental exposures and microbial dysbiosis. In this dissertation, mice were exposed to relevant deposited doses of carbon black (CB) and ozone (O3), and lung inflammation as well as the lung-gut axis of the microbiome …

Relationships Between Geochemistry, Carbon Content, And Grain Size In Clastic Cave Sediments, Rebekah Rose Nicholas

Graduate Theses, Dissertations, and Problem Reports (ETD)

Understanding geochemical and physical properties of cave sediment gives insight to sediment characterization and carbon storage in the cave system. Previous work on clastic sediments largely encompasses physical properties, neglecting the importance of geochemical parameters on sediment deposition.

This study reports physical and chemical properties of sediment cores from three caves: two caves in Puerto Rico and one cave in Virginia. A total of 25 cores were used in this study; 6 of these cores were new and collected in 2022 from Butler Cave (BTC) in Virginia to focus on the effects of water level. Core samples were analyzed for …

Application Of Computational Biophysics Techniques To Characterize Cell Membrane-Associated Events, Kyle Billings

Graduate Theses, Dissertations, and Problem Reports (ETD)

Cell membranes are crowded environments which can modulate protein structure-function relationships through interaction with lipids, other proteins, carbohydrate structures and so on. This work focuses the impact of the membrane environment on two varieties of peptides: Microbial rhodopsin proteins, and cyclic peptides.

Life on Earth is dependent on the ability of plants and microbes to harness sunlight for energy production. Their ability to transform light into carbohydrates requires tailor-made machinery, and for a wealth of microorganisms, microbial rhodopsin proteins (MR) are critical for maintaining the concentration gradients used to produce the energy molecule Adenosine triphosphate (ATP). The central retinal molecule …

Examining The Relations Among Academic And Non-Cognitive Factors And Student Achievement, Dona Sachini Hasanjalie Hewagallage

Graduate Theses, Dissertations, and Problem Reports (ETD)

Since the 1980s, Physics Education Research (PER) has explored the factors influencing students' success in college. This manuscript reports three different studies to understand the impact of different factors on students' college physics achievement. The first study explored several academic (high school physics preparation, high school preparation, math readiness, and ACT or SAT verbal and mathematics scores) and non-cognitive (self-efficacy, personality, belonging, grade expectation, and demographic) factors using correlation and linear regression analysis to understand their relation to students' physics conceptual understanding measured by the Force and Motion Conceptual Evaluation (FMCE). High school preparation was found to be the most …

Spiking Neural Network That Maps From Generalized Coordinates To Cartesian Coordinates, Chloe K. Guie

Graduate Theses, Dissertations, and Problem Reports (ETD)

In this thesis, I look to understand how insects compute task-level quantities by integrating range-fractionated sensory signals to create a sparse-spatial coding of Cartesian positions. I created biologically plausible 2-D and 3-D models of one species of the stick insect (Carausius morosus) leg and encoded the foot position through a spiking neural network. This model used spiking afferents from three angles of an insect leg which are integrated by one non-spiking interneuron. This model contains many dendritic compartments and one somatic compartment that encode the foot’s position relative to the body. The Functional Subnetwork Approach (FSA) was used …

Investigating The Interactions Of The Iron-Sulfur Mitochondrial Protein, Mitoneet With Its Binding Partners, Ebenezer Osei Newton

Graduate Theses, Dissertations, and Problem Reports (ETD)

MitoNEET belongs to the CDGSH Iron-Sulfur Domain (CISD)-gene family of proteins and is a [2Fe-2S] cluster-containing protein found on the outer membrane of mitochondria. The specific functions of mitoNEET/CISD1 remain to be fully elucidated, but the protein is involved in regulating mitochondrial bioenergetics in several metabolic diseases. Unfortunately, drug discovery efforts targeting mitoNEET to improve metabolic disorders are hampered by the lack of ligand-binding assays for this mitochondrial protein. We have developed a protocol amenable for high-throughput screening (HTS) assay, by modifying an ATP fluorescence polarization method to facilitate drug discovery targeting mitoNEET. Based on our observation that adenosine triphosphate …

Evaluation Of A Novel Mrna-Pertussis Vaccine Against Emerging Clinical Isolates Of Bordetella Pertussis, Graham Jeffrey Bitzer

Graduate Theses, Dissertations, and Problem Reports (ETD)

Bordetella pertussis is a Gram-negative obligate aerobe that causes a respiratory disease known as pertussis or whooping cough. Pertussis is most severe in younger children, especially infants but the bacteria has been known to colonize adult populations. Before the introduction of the whole-cell pertussis (wP; wP-DTP) vaccine reported numbers of pertussis cases within the US routinely topped 100,000 cases per year. However, with the widespread usage of the wP vaccine case numbers began dropping and reached a low of less than 5,000 cases per year in the late 1970’s and early 80’s. It appeared that B. pertussis was heading towards …

Exploring The Usage Of Acid Mine Drainage Sludge As A Soil Amendment For Reclaimed Mine Lands, Brady Watters

Graduate Theses, Dissertations, and Problem Reports (ETD)

Acid mine drainage (AMD) is a form of water pollution generated when water and oxygen come into contact with sulfide minerals, forming metal ions, sulfuric acid, and sulphates in solution. AMD is characterized by its toxic metals content and low pH, both of which are an environmental concern. The treatment of AMD separates the contaminants into a high-water content sludge. This sludge is a pure waste product under current evaluation for alternative uses as well as improvements to storage and treatment processes. This thesis focused on analyzing the potential for AMD sludge to be used in recently reclaimed lands as …

Mechanisms Of Pulmonary Inflammation And Lung Function Decline After Ultrafine Carbon Black And Ozone Inhalation Co-Exposure, Nairrita Majumder

Graduate Theses, Dissertations, and Problem Reports (ETD)

Air pollution is a mixture of particulate matter, gaseous substances, and other contaminant, yet most of the studies have addressed single exposure outcomes. The effect of environmental toxicants in lung adverse outcomes can be evaluated by studying the co-exposure scenario. The impact of co-exposures is not well addressed in susceptible populations like patients suffering from acute lung injury, asthma, and fibrosis. Without such knowledge it would be difficult to establish a safe exposure limit for mitigating environmental burden in patients and public. The main goal of this study was to understand the effect of ultrafine particle and ozone co-exposure in …

Confluence: Evaluating The Individual Learning Outcomes Of A Combined Citizen Science And Environmental Education Project, Evan A. Harms

Graduate Theses, Dissertations, and Problem Reports (ETD)

Citizen Science has moved beyond a methodological tool for ecologists to crowdsource data to a novel platform for environmental and informal science education. However, few studies document the individual learning outcomes of citizen science as an educational tool, particularly in youth or extension education. This quantitative study focused on evaluating the individual learning outcomes of an environmental education and citizen science non-formal learning experience about water quality.

In this study, an existing lesson plan using four sequenced activities was adapted for use with West Virginia 4-H summer camps in 2022. Potential outcome areas were first identified from foundational environmental education …

Effects Of Development On Hpa Function Following Pubertal Stress, Brittany D. Elliott

Graduate Theses, Dissertations, and Problem Reports (ETD)

For women, two of the greatest risk factors for affective disorders are adversity experienced during puberty and later becoming pregnant. We have created a translationally relevant mouse model where we address these complex risk factors. Previously, we discovered that pregnant mice (dams) that experienced chronic variable stress (CVS) during puberty display a blunted hypothalamic-pituitary-adrenal (HPA) response when exposed to an acute stressor. Interestingly, this alteration only first becomes apparent during pregnancy, which is a sensitive period for these effects due to normative neuroendocrine changes. Further investigation of the mechanisms underlying this dysfunction revealed altered gene expression in the paraventricular nucleus …

A Case Study Of Makerere University In Uganda Through The Lens Of U.S. Land-Grant Higher Education, Christina L. Hand

Graduate Theses, Dissertations, and Problem Reports (ETD)

This case study examines Makerere University through the lens of U.S. land-grant ideal and normative domains in order to provide a deeper understanding of global higher education. A case study uses multiple types of data to create a holistic perspective. As well as interviewing Makerere stakeholders representing diverse sectors, numerous documents and different types of media were analyzed enabling a triangulation of data. Six major themes emerged focusing on Makerere’s aspiration to be a research-led institution, the impact of neoliberalism, challenges in undergraduate education, the importance of reputation and saga, the ever-present role of the Ugandan government, and the continuing …

Understanding The Relationship Between Landscape Characteristics And Public Preferences: A Case Study In A Proposed Appalachian Geopark Project In Southern West Virginia, United States, Ganga Nakarmi

Graduate Theses, Dissertations, and Problem Reports (ETD)

The purpose of this dissertation was to understand the relationship between landscape characters and public preferences in the proposed Appalachian Geopark (pAGP) in southern West Virginia, United States (U.S.). This region was well-known for industrial activities such as coal mining logging and railways during the 1800s. With the diminishing industrial activities, the region was left behind with degraded environmental factors including landscapes and an economically challenged society. Because of these conditions, there is a need to develop this region without further damaging the lands and implement proper land management policies and practices. Understanding characteristics of those lands from the past …

Antibacterial Effect Of Various Irrigants Against Enterococcus Faecalis, Morgan N. Kesecker

Graduate Theses, Dissertations, and Problem Reports (ETD)

Introduction:

One of the goals of endodontic therapy is to debride infected pulps of teeth and return the tooth to a state of health in preparation of restorative care and return to function. Chemically cleansing of the canal system augments mechanical debridement by flushing out debris, dissolving tissue, and disinfecting the root canal system. The purpose of this research is to compare the efficacy of five irrigants: 0.008% HOCl acid (Endocyn®), 0.03% HOCl (Vashe®), 6% and 8.25% sodium hypochlorite (NaOCl), and Ozone against a typical bacterial species found in infected pulps, Enterococcus faecalis (E. faecalis).

Methods:

After 24 hours …

Meiotic Recombination In Zea Mays And Its Contribution To Genetic Diversity, Jasmine Elizabeth Freeman

Graduate Theses, Dissertations, and Problem Reports (ETD)

Meiotic recombination plays a vital role in shaping genome evolution by introducing genetic diversity necessary for natural selection. Recombination rates exhibit extensive variation within and between species, occurring in specific regions known as hotspots and coldspots along individual chromosomes. Maize, with its well-characterized genome, provides an excellent model for studying the nonrandom pattern of meiotic recombination. While retrotransposon activity contributes to significant intergenic variation in maize inbred lines, the genic space remains conserved in terms of gene order and sequence. To investigate recombination activity in the Bz1/Sh1 region, the maize haplotypes W22 and B73, which share genetic backgrounds but differ …

Localized Delivery Of Gm-Csf In The Regulation Of Breast Tumor Oxygen And Anti-Tumor Immunity Through Macrophages, Nicole E. Mihalik

Graduate Theses, Dissertations, and Problem Reports (ETD)

GM-CSF has been employed as an adjuvant to cancer immunotherapies in solid tumors due to its ability to drive immune stimulatory macrophages and other myeloid cells that promote anti-tumor responses. However, GM-CSF does not always exert immune stimulatory effects on myeloid cells, and sometimes even drives immune suppressive phenotypes. GM-CSF effects on myeloid cells and the tumor microenvironment (TME) appear to vary across dosages and even cancer types. However, an optimal dosing regimen for GM-CSF has yet to be determined to-date, and this is further complicated by the fact that GM-CSF is often administered via oncolytic viruses or tumor vaccines …

Exploring Early Childhood Educators’ Attitudes About Addiction And Their Association With Student-Teacher Relationships, Megan E. Mikesell

Graduate Theses, Dissertations, and Problem Reports (ETD)

This project aimed to address significant gaps in literature around addiction-related attitudes by identifying early childhood educators’ addiction-related attitudes and how these attitudes associate with their relationships with students who come from homes with addiction. A sample of 501 ECEs completed an online survey which included the Public Attitudes About Addiction Survey (PAAS; a 54-item measure used to identify a person’s beliefs about addiction across five models), the Student-Teacher Relationship Scale (STRS; a 15-item scale used to measure the level of closeness and conflict), and various demographic and community questions. Path analysis revealed that both moral and nature aligned attitudes …

Advancing Carbon Sequestration Through Smart Proxy Modeling: Leveraging Domain Expertise And Machine Learning For Efficient Reservoir Simulation, Iman Oraki Kohshour

Graduate Theses, Dissertations, and Problem Reports (ETD)

Geological carbon sequestration (GCS) offers a promising solution to effectively manage extra carbon, mitigating the impact of climate change. This doctoral research introduces a cutting-edge Smart Proxy Modeling-based framework, integrating artificial neural networks (ANNs) and domain expertise, to re-engineer and empower numerical reservoir simulation for efficient modeling of CO₂ sequestration and demonstrate predictive conformance and replicative capabilities of smart proxy modeling.

Creating well-performing proxy models requires extensive human intervention and trial-and-error processes. Additionally, a large training database is essential to ANN model for complex tasks such as deep saline aquifer CO₂ sequestration since it is used as the …

Attachment Issues: Microbes, Minerals, And The Persistence Of Soil Organic Matter, Md Shafiul Islam Rion

Graduate Theses, Dissertations, and Problem Reports (ETD)

The remnants of microorganisms are now understood to account for the majority of organic matter in many mineral soils. Despite the significance of this microbial necromass for soil carbon storage, we know relatively little about how the traits of microorganisms interact with soil minerals to determine the stability of microbe derived carbon in soil. Soil minerals differ in their surface area and chemistry potentially influencing microbial attachment, biofilm formation, and the persistence of microbial necromass. To address this knowledge gap, we grew twelve bacterial species from four broad groups of varying cell wall morphology (Gram positive, Gram negative, filamentous actinobacteria, …