Life Sciences Commons^™

Evaluating Planting Methods For Native Seed Production And Exploring Granivory In The Northern Great Plains, Allison Dollen

Electronic Theses and Dissertations

Temperate grasslands have faced immense losses due to land use change in the last 150 years and less than half of the overall grasslands that once covered North America remain today. A portion of historic and remaining U.S. grasslands are located within the northern Great Plains (NGP) region which is home to over 1,600 species of native plants and provides many ecosystem services and economic benefits. Initiatives to restore grasslands and their ecosystem services are currently underway, but barriers such as limited native seed supply and granivory hinder restoration efforts. My first chapter addresses knowledge gaps in planting methods for …

Impact Of Water Level Fluctuations On Fish Populations In Eastern South Dakota Rivers, Benjamin Schall

Electronic Theses and Dissertations

Riverine systems are highly dynamic, and changes in flow conditions can impact the population dynamics of fishes. Increased flows from historical averages in eastern South Dakota rivers have likely impacted fish populations. The goals of this study were to 1) better understand the changes in resource use by Blue Suckers Cycleptus elongatus through retrospective eye lens stable isotope analysis, 2) determine the effects of record flooding in the James River on complex woody habitat and Flathead Catfish Pylodictis olivaris population structure, and 3) assess the influence of river discharge and temperature on Channel Catfish Ictalurus punctatus and Flathead Catfish condition …

Transcriptomic And Epigenetic Analysis Of Dormant Grape Buds During Chilling Fulfillment, Imasha Thilakarathna

Electronic Theses and Dissertations

No abstract provided.

Investigation Of Perennial Clover Living Mulch And Reduced Tillage Effects On Weed Suppression, Crop Metrics, And Yield Of Organic Cabbage And Sweet Corn In The Northern Great Plains, Kristina Harms

Electronic Theses and Dissertations

Vegetable farmers often face weed management and soil health challenges, such as nitrate leaching, soil compaction, and top-soil loss. Sustainable agriculture is a forefront of innovation compared to conventional agriculture. Living mulches, non-cash crops grown alongside cash crops, have demonstrated weed suppression and impact on the promotion of sustainable agriculture. Yet studies have not evaluated established living mulch systems on cash crop quality and yield. This study conducted in 2023, 2024, and 2025 at SDSU Southeast Research Farm, Beresford, SD, USA evaluates the impact of established ‘Dynamite’ red clover (Trifolium pratense), ‘Domino’ white clover (T. repens), and ‘Aberlasting’ white × …

Chemical Load: An Unseen Herbicide Filter In Restored Prairies?, Rylie Franklin

Electronic Theses and Dissertations

Community Assembly Theory is a framework used to describe the process by which species from a regional species pool disperse and encounter various abiotic and biotic conditions that act as filters, limiting which species will populate a specific local community. Prairie restoration success can be improved by understanding abiotic and biotic filters. As agricultural practices have adopted integrated weed management plans, that include the use of both chemical and non-chemical techniques, another filter needs to be considered during restoration: the chemical load of soils, i.e., herbicide residue from recent on-site applications and herbicide drift from adjacent areas. To examine the …

A Persistent Homology Framework For Scrna-Seq: Assessing Clustering Robustness And Quantifying Preprocessing And Integration Effects On Topological Features., Jonah Daneshmand

Electronic Theses and Dissertations

As single-cell RNA sequencing (scRNA-seq) data expands, robust methods for integrating diverse datasets are critical. This dissertation applies Persistent Homology (PH), a technique from Topological Data Analysis (TDA), to a collection of scRNA-seq datasets spanning eight tissue types to quantify how data integration affects topological features and biological interpretability. We assessed global topological structure using Betti curves, Euler characteristics, and persistence landscapes across raw, normalized, and integrated data representations. Our analysis revealed a performance inversion: while conventional methods excelled on unintegrated data, high-granularity topological methods, particularly those sensitive to global data structure, became superior after integration. This suggests a synergy …

A Ralgef Inhibitor Suppresses Lung Cancer Stem Cell Development And Tumorigenesis., Raphael Ngozichi Suarez Jigo

Electronic Theses and Dissertations

The RALGEF family of proteins are direct downstream effectors of the RAS oncoprotein. RALGEFs act as guanine nucleotide exchange factors (GEFs) for downstream RAL proteins, thus tying RAS to the regulation of RAL. Genetic studies have demonstrated RAL proteins to be key drivers of RAS-driven transformation and metastasis. Furthermore, this pathway has been implicated in chemoresistance, exocyst-mediated transport, and the modulation of cancer stem cells. Previous work in our lab reported the activity of a novel pan-RALGEF inhibitor (C4-180) against RAS-driven pancreatic cancer models. Here we show the agent to be active against in vitro and in vivo models of …

The Autonomic And Arrhythmogenic Effects Of Gestational E-Cigarette Exposure., Brittany Rachelle Reynolds

Electronic Theses and Dissertations

Introduction. E-cigarettes (e-cigs) have been shown to be pro-arrhythmic in both human and male rodent studies; however, little is known about how e-cig use impacts patients with a predisposed heightened risk for arrhythmias, including pregnant women. Both pregnancy and e-cig use have independently been shown to increase heart rate, diminish heart rate variability, and increase ventricular premature beats, which is suspected to be due to sympathetic dominance. Importantly, β-blockers have been shown to reduce sympathetic activity, reduce heart rate, increase HRV, and reduce arrhythmias. Thus, the use of β-blockers may help prevent adverse health effects driven by sympathetic dominance from …

Tumor Infiltrating Lymphocytes: From Discovery To Clinical Application., Lewis Clayton Chew

Electronic Theses and Dissertations

This thesis explores the evolution of TIL therapy from its discovery to clinical application, focusing on its use in treating metastatic cancer. Adoptive cell therapy (ACT), particularly TIL therapy, has emerged as a promising alternative to traditional treatments like chemotherapy. This review article traces the historical development of TILs, highlighting key experiments and clinical trials that have shaped its understanding and application as a therapeutic strategy for patients with metastatic and difficult to treat cancers including melanoma. Importantly, this article highlights recent advancements, including the FDA approval of Lifileucel, and explores emerging strategies to enhance therapeutic efficacy of TILs through …

Examing Fear Conditioning/Extinction And The Role Of The Amygdala In Human Neuroimaging., Olivia Cook

Electronic Theses and Dissertations

Fear plays a crucial role in survival but can lead to psychological disorders when dysregulated. Fears can be innate due to evolutionary relevance or learned through associative processes, where predictive accuracy of threat is pivotal. Disruptions in fear neurocircuitry contribute to anxiety disorders, characterized by heightened activation and impaired learning. Fear conditioning and extinction paradigms based on classical Pavlovian conditioning have been used to study mechanisms underlying fear learning. Using this experimental model, fear networks in rodents have been described in detail with clear distinction between conditioning and extinction neural functioning. Yet, there is no consensus on the neurobiological processes …

Identifying Correlates Of Protection Of A Pneumonic Plague Vaccine., Caleb Samuel Whitley

Electronic Theses and Dissertations

Pneumonic plague is caused by inhalation of the bacterial pathogen Yersinia pestis. The immune response during Pneumonic plague occurs in two phases; an initial asymptomatic phase followed by a highly inflammatory and destructive phase resulting in 100% mortality if left untreated. The rapid onset of severe disease following the asymptomatic phase makes it difficult to administer antibiotics in time to prevent lethal outcomes. Therefore, the development of an effective vaccine is likely needed to combat pneumonic plague in areas of the world where Y. pestis remains endemic. One candidate subunit vaccine is protective in mice, a natural host for …

Genetic Identification Of A Rapidly-Adapting Low-Threshold Mechanoreceptor Innervating Fungiform Papillae., Thomas Alexander Myers Ii

Electronic Theses and Dissertations

Mechanosensory innervation of the oral cavity enables us to detect the texture and location of the foods we consume. Our goal was to find a genetic identifier for a mechanoreceptive subtype. Toward this goal, we examined neurons expressing the neurotrophin receptor TrkC, parvalbumin (Pvalb), and the glutamate transporter Vglut3. Because different papilla types contribute to food detection in different ways, we examined the innervation patterns of these neuron subtypes. We found that Pvalb+ and Vglut3+ neurons were fungiform papilla specific, where TrkC innervated both papilla types. We examined the anatomy of the three genetic populations, finding that the Pvalb+ neurons …

Further Characterization Of The Fungal Effector Mvlg-01732 In Planta And Heterologous Expression Of Fungal Effectors In Different Smut Fungi., Joseph Paul Ham

Electronic Theses and Dissertations

Host-pathogen interactions in smut fungi are characterized by effector proteins and their role in infection. The goal of this work is to better understand these interactions by further characterizing an effector from Microbotryum lychnidis-dioicae and heterologously expressing this and other effectors in heterologous species to see if the range of these effectors can play a role in pathogenicity when expressed in distantly and closely related fungal species. These effectors have been attuned over time to their host plant but have homologous interactors in other plant species. In this study, Microbotryum lychnidis-dioicae, Sporisorium reilianum, and Ustilago maydis, were all used …

Sensory And Motor Tectothalamic Circuits: Two Sides Of The Same Coin., Nazratan Naeem

Electronic Theses and Dissertations

Integration of sensorimotor information in the visual system has always been an intriguing topic to scientists, yet the subcortical sensory and motor circuits that are essential components of this process have remained elusive. In these studies, we used a blend of classical and contemporary techniques such as viral tracing, immunohistochemistry, optogenetics in-vitro whole cell electrophysiology, and electron microscopy in mice to characterize sensory and motor circuits of the superior colliculus (SC), a conserved visuomotor structure with connections with a wide variety of brain structures, including the thalamus. We focused on two SC cell types: visually responsive widefield vertical (WFV) cells …

Visualizing The Fretboard: Arpeggiated Patterns, Muscle Memory, And Neurocognitive Strategies For The 5-String Electric Bass, Matthew Alexander Woisin

Electronic Theses and Dissertations

Proficient navigation of the 5-string electric bass requires a comprehensive mastery of various techniques and a solid understanding of music theory. This includes a detailed grasp of arpeggios, chord extensions, and the development of deeply ingrained muscle memory for precise execution. This thesis introduces a structured methodology that refines existing fretboard visualization techniques and applies a unique manner of fretboard mapping, offering a more precise framework for comprehending and unlocking the full range of the instrument. By drawing insights from music theory, music education, cognitive science, neuroscience, and technology this approach is achieved by synthesizing research on visual pattern recognition, …

Characterizing The Ethanol Sensitivity Of The Planar Cell Polarity Pathway In Endoderm Morphogenesis And Jaw Development., Raéden Omneil C. C. Rolle Gray

Electronic Theses and Dissertations

Fetal Alcohol Spectrum Disorders (FASD) describes a large range of developmental defects due to prenatal alcohol exposure. It is characterized by neural and facial defects, including jaw hypoplasia. Many factors contribute to the susceptibility of ethanol-induced facial defects, including genetics, yet the genes involved, and the cell events they regulate, are poorly understood. Zebrafish have a large number of tools for genetic manipulation available, share 70% of genes with humans, are fertilized externally and are translucent during embryogenesis, making them great models to study FASD. Previous studies show that two members of the Planar Cell Polarity (PCP) pathway, zebrafish vangl2 …

Avaren-Fc's Effects On Lymphoma Cells., Jacob Hahn

Electronic Theses and Dissertations

This thesis investigates the therapeutic potential of Avaren-Fc (AvFc), a novel lectin fusion protein that integrates the Fc region of human IgG1 with the engineered lectin Avaren, specifically targeting lymphoma. The study delineates the in vitro binding capabilities of Avaren-Fc with a human B-cell lymphoma cell line, a canine B-cell lymphoma cell line, healthy canine peripheral blood mononuclear cells (PBMCs), and healthy human PBMCs. AvFc was shown to exhibit significant binding to human lymphoma cells. Furthermore, the direct cytotoxicity of Avaren-Fc against canine lymphoma cells, canine lymphoma cells and healthy canine PBMCs was assessed. It was found that there is …

Enzymatic Depletion Of Adenosine To Potentiate Cancer Immunotherapy., Omar Sadi Sarkar

Electronic Theses and Dissertations

Immune checkpoint blockade (ICB) therapies have revolutionized cancer treatment, but many patients still do not respond well. To improve therapeutic outcomes, chemotherapy is often combined with immunotherapy, as chemotherapy is known to promote immunogenicity. However, many patients develop resistance to this combination therapy, and the reasons behind it are not fully understood. In this study, we explored how platinum-based chemotherapy, specifically cisplatin, affects tumor signaling to create an immunosuppressive tumor microenvironment (TME). We found cisplatin triggers ataxia telangiectasia mutated (ATM)-mediated DNA damage signaling and induces higher expression of prostaglandin E₂ (PGE₂) via a cyclooxygenase-2 (COX-2) mediated pathway. We speculate DNA …

Exposure To Pm2.5 And Aging., Daniel Chris Gomes

Electronic Theses and Dissertations

Inhalation of fine airborne particulate matter (PM_2.5) is an environmental risk factor for numerous health disorders, including cardiovascular diseases (CVD). While several studies have shown that PM_2.5 exposure can induce oxidative stress, DNA damage, and inflammation, the underlying mechanisms that translate these effects into systemic pathology remain poorly understood. Some recent studies have shown that PM_2.5 exposure can lead to telomere shortening in leukocytes, but the generality of this outcome and contribution to endothelial dysfunction has not yet been fully explored. We hypothesized that PM_2.5inhalation accelerates cellular aging and senescence in both circulating peripheral …

Integration And Modulation Of Visual Signals In Dorsal Thalamus., James Whitley

Electronic Theses and Dissertations

The visual thalamus is influenced by a diverse array of cortical and subcortical inputs that shape how information is transmitted to cortex. Using a variety of anatomical, optogenetic, and in vitro physiological techniques I investigated the differential impacts of modulation and integration of first and higher-order thalamic nuclei, while relying on influential concepts on the general organization of thalamic nuclei. In the first data chapter, I determined how GABAergic pretectum (PT) projections to the dorsal lateral geniculate nucleus (dLGN) and visual thalamic reticular nucleus (vTRN) can influence retinogeniculate signal transfer. We found that the PT provides over 75% of the …

Characterizing Hexavalent Chromium Neurotoxicity Across Laboratory Models., Samuel Thomas Vielee

Electronic Theses and Dissertations

Hexavalent chromium [Cr(VI)] is a ubiquitous environmental pollutant and potent toxicant. Exposure to Cr(VI) in drinking water is primarily associated with cancers, inflammation, and hepatotoxicity; however, recent studies have identified Cr(VI) as a neurotoxicant in rodent and cell culture models. The literature suggest chromium accumulates in the brain, induces widespread neurodegeneration, and alters rodent behaviors. Despite these data, we lack a detailed and consistent assessments of Cr(VI) neurotoxicity across models, and interactions between aging and Cr(VI) neurotoxicity are not reported in the literature. In this dissertation, we characterize Cr(VI) neurotoxicity across 3 laboratory models: Sprague-Dawley rats, Caenorhabditis elegans, and …

The Ecology Of Arthropod Rain In A Tropical Forest., Andrew Robert Seiler

Electronic Theses and Dissertations

Tropical forests are structured by complex vertical linkages and nutrient exchanges between canopy and understory habitats. These linkages include the downward flux of organisms, the movement of canopy fauna, and the recycling of nutrients through litter and organic matter deposition. This dissertation investigates arthropod rain and its role in connecting the canopy and forest floor processes in a lowland tropical forest in Panama. Chapter 2 quantifies “arthropod rain”, the fall of canopy arthropods into the understory. Using pan and pole traps, I measured the composition, abundance, and biomass of arthropods falling from the canopy and assessed environmental drivers of the …

Strategic Enhancement Of Biofuel Production Using Bacillus Subtilis As A Model Organism: A Dual Approach Of Gene Essentiality Mapping And Optimization, Angela A. Zebede

Electronic Theses and Dissertations

With rising global demand for renewable energy, enhancing microbial platforms for biofuel production is vital. This study engineered Bacillus subtilis to improve resilience to solvent stress by targeting membrane lipid biosynthesis pathways essential for integrity. Growth curve analysis (OD₆₀₀) showed that phosphatidylserine (PS) and phosphatidylethanolamine (PE) knockout strains grew significantly slower than wild type (168), indicating the importance of these lipids under stress. Laurdan fluorescence spectroscopy was used to assess membrane properties. Generalized polarization (GP) analysis revealed a concentration-dependent reduction in membrane order upon 1%–2% 1-butanol exposure. GP values declined progressively from control to 2% treatment, reflecting increased membrane fluidity …

Mountain Communities During A Time Of War: A Case Study Of The Hutsul Region In The Carpathian Mountains Of Ukraine, Pavlo Rybaruk

Electronic Theses and Dissertations

This thesis investigates the ethno-ecological technologies employed by the Hutsul people within the highland agrarian economy of the Carpathian Mountains. Over centuries, the Hutsuls have developed ethno-ecological technologies that maintain ecological integrity while supporting community livelihoods.

The study addresses three primary research questions: What are the most important ethno-ecological technologies of the Hutsul highland economy? How might these traditional ethno-ecological practices be applied to economic, agricultural, and tourism development in the Hutsul region? How might these traditional ethno-ecological practices be combined with contemporary approaches to encourage sustainable development in the region?

The research explores the devastating impact of the Russian …

Centrosomal And Non-Centrosomal Microtubule Networks Coordinate To Drive Nuclear Dynamics In Developing Epithelium, Rashmi Budhathoki

Electronic Theses and Dissertations

The morphogenesis of developing tissues relies on extensive cellular rearrangements in shape, position, and identity. A key process in reshaping tissues is cell intercalation-driven elongation, where epithelial cells align and intercalate along a common axis. Typically, analyses focus on how peripheral cortical forces influence cell shape changes. Less attention is given to how inhomogeneities in internal structures, particularly the nucleus, impact cell shaping. Here, we examine how pulsed contractile and extension dynamics interact with the nucleus in elongating Drosophila embryos. Our data show that tightly packed nuclei in apical layers hinder tissue remodeling/oscillatory behaviors. We identify two mechanisms for resolving …

Role Of Nucleic Acids As Chaperones In Protein Folding, Zijue Huang

Electronic Theses and Dissertations

Many proteins have slow folding times in vitro that are physiologically untenable. To combat this challenge, ATP-dependent chaperonins are thought to possess the unique ability to catalyze protein folding. Performing quantitative model selection using protein folding and unfolding data, we here show that short nucleic acids containing Gquadruplex (G4) structure can also catalyze protein folding. Performing the experiments as a function of temperature demonstrates that the G4 reshapes the underlying driving forces of protein folding. To understand the structural basis of this catalytic activity, we introduce NMR method to solve the structures, at base-level resolution, of a multiconformer G4 with …

Effect Of Histidine Tag On The Enzymatic Activity Of Pseudolysin And Its Interaction With The Streptomyces Metalloprotease Inhibitor (Smpi) Protein, Adewale Adeboye Adewole

Electronic Theses and Dissertations

Pseudolysin (PLN) protein is a major virulent factor in Pseudomonas aeruginosa infection. PLN belongs to the family of zinc-dependent metalloproteases. It is naturally inhibited by a smaller protein called streptomyces metalloprotease inhibitor (SMPI), secreted by Streptomyces nigrescens. Previous and current studies demonstrate that the interaction between PLN and SMPI offers unique mechanistic insights for drug development against infections caused by P. aeruginosa. This study investigated the effect of N-terminal Histidine (His) tag on the enzymatic activity of PLN and its interaction with SMPI. His-tagged PLN and SMPI proteins were expressed in bacteria and purified by affinity chromatography …

Modeling Diameter Distribution Of Loblolly Pine Plantations In Response To Mid-Rotation Thinning Treatments And Assing The Economic Returns In Western Gulf Coastal Plain, Pragya Rijal, Yuhui Weng, Anusha Shrestha, Jason Grogan

Electronic Theses and Dissertations

The influence of thinning regimes incorporating row thinning on diameter distribution and timber product allocation is of considerable importance in the management of loblolly pine (Pinus taeda) plantations within the Western Gulf Coastal Plain. This study utilized data from a thinning study plots established by the East Texas Pine Plantation Research Project across East Texas and Western Louisiana. A two-parameter Weibull distribution was used to model diameter distributions under varying thinning intensities, with parameter estimation conducted using both parameter prediction (PPM) and percentile-based (PRM) methods. The PRM approach demonstrated excellent model performance, with coefficients of determination (R²) ranging …

Enumerating Escherichia Coli (E. Coli) Concentrations And Evaluating Optical Brighteners As A Potential Indicator Of Human Wastewater Contamination In La Nana Bayou, Banita Creek, And Their Tributaries, Nacogdoches, Texas, Swastika Acharya, Matthew Mcbroom, Yuhui Weng, Yanli Zhang

Electronic Theses and Dissertations

La Nana Bayou was added to the Texas 303(d) list in 2000 after it failed to meet water quality standards set by the Texas Commission on Environmental Quality (TCEQ) for primary contact recreation due to elevated Escherichia coli (E. coli) levels. E. coli is a bacterial species commonly found in the intestines of humans and warm-blooded animals. It serves as an indicator of fecal contamination in freshwater, though its presence alone cannot identify the contamination source. Optical brighteners (OBs), chemicals found in laundry detergents, cleaning agents, toilet papers, and clothing, are unique to human wastewater. This study aimed …

A Toi Rna Editing In Three Members Of The Microbotryum Violaceum Fungal Complext And Characterization Of Adar Genes Of Microbotryum Superbum., Shikhi Baruri

Electronic Theses and Dissertations

A-to-I RNA editing is a process that occurs post-transcriptionally. Through this process, adenosine (A) is replaced by inosine (I) in RNAs by adenosine deaminase enzymes that act on the single-stranded RNA. These enzymes, also known as ADARs, act on RNA. The translation and splicing mechanisms subsequently interpret inosine as guanosine (G), which effectively alters genetic information. This kind of RNA alteration can cause both nonsynonymous and synonymous changes in codon, which may have an impact on protein function. A group of over 89 basidiomycete fungal species known as the Microbotryum violaceum complex infects a similarly large group of plant host …