Life Sciences Commons^™

Characterizing A Rad23 Dependent Ultraviolet Radiation Resistance In Tetrahymena Thermophila, Emma June Liimatta

Graduate Theses/Dissertations

In 2020, 10 million deaths were attributed to cancer, with multidrug resistance being responsible for over 90% of deaths in cancer patients receiving treatment. This study utilized the model organism Tetrahymena thermophila to study how cells become resistant to Ultraviolet Radiation (UV) radiation, a process similar to multidrug resistance, specifically focusing on the nucleotide excision repair and ubiquitin shuttle protein Rad23. The National Cancer Institute documented 30-60% of cancers tested had a mutation in RAD23. Knockdown of RAD23 in Tetrahymena thermophila demonstrated a UV resistance phenotype with decreased nucleotide excision repair and differential expression of proteins active within caspase-independent …

Next In Line: Exploring Owner, Business, And Family Characteristics And Farm Succession Planning, Tucker Lane Bittick

Graduate Theses/Dissertations

The growing average age of the American farmer raises concerns about who will be involved in the future agricultural economy. Efficient succession in family farms keeps farm values high, and farms that plan for succession have an incentive to invest more resources into the farm. Knowing what factors on family farms are common when succession occurs could help encourage earlier succession planning. The research questions were: “Are family, business, and owner characteristics significantly related to the presence of a farm succession plan on farms in the Midwest?” and “Are family, business, and owner characteristics significantly related to principal operators’ preference …

Use Of Fecal Inoculum From Easy And Hard Keeper Horses To Determine In-Vitro Digestibility Of Feedstuffs Used In Equine Diets, Leah Bills

Graduate Theses/Dissertations

Digestibility studies provide vital information for formulating ideal diets based on an animal’s ability to digest and absorb the available nutrients from the feed provided. The purpose of this study was to determine if there is a difference in the nutrient digestion of horses between those that have a difficult time maintaining a healthy body weight (body condition score at or below 5, hard keeper) and those that easily maintain a healthy body weight (body condition score of >5, easy keeper). Six mature geldings averaging 534.1 ± 47.1 kg were used in this study. During the experimental period horses were …

Characterization Of The Overexpression Of Reca Homologs Rad51 And Dmc1 In Tetrahymena Thermophila, Jianna M. Cox

Graduate Theses/Dissertations

RecA homologs, Dmc1 and Rad51, work to repair DNA double-strand breaks (DSBs) within the cell through the recombination of homologous sections of DNA. Dmc1 works to repair programmed DSBs through meiotic recombination, while Rad51 functions to repair both meiotic and non-meiotic DSBs, the latter repaired through the process of homologous recombination repair (HHR). Chemotherapeutics, exogenous agents, work to form DSBs in cancer cells, attempting to inhibit the cell’s growth. A hyper recombinant phenotype is often seen in cancer cells due to the overexpression of RAD51, leading to drug resistance, the persistence of cancers, and an overall poor patient outcome. …

Spatial And Temporal Shifts In Bacterial Communities And Nutrient Removal In Two Springfield Wastewater Facilities, Rubina Sherchan

Graduate Theses/Dissertations

Bacterial communities play a central role in the biological nutrient removal and overall performance of wastewater treatment plants (WWTPs). However, very few is known about the spatial and seasonal dynamics of these communities. This study explores the spatial and seasonal variations in bacterial community composition across multiple treatment stages in two municipal WWTPs—Southwest (SWTP) and Northwest (NWTP)—in Springfield, Missouri. Using 16S rRNA gene amplicon sequencing, I analyzed 87 samples collected during summer and winter of 2024 from influent, sludge, aeration basins, clarifiers, and final effluent stages. I retrieved 16.4 million (summer) and 3.2 million (winter) sequences. Proteobacteria dominated both seasons …

Restoration Of Giant River Cane (Arundinaria Gigantea) In Southwest Missouri, Lyndsey D. Rightnowar

Graduate Theses/Dissertations

Giant river cane (Arundinaria gigantea), a native bamboo species, once dominated riparian landscapes across the southeastern United States but has declined to approximately 2% of its historic range. This study evaluated restoration techniques for giant cane in southwest Missouri by examining the influence of rhizome source (putative genotype), planting type, and restoration site on restoration success. I compared two planting types: greenhouse-to-field (G2F) transplanting, where rhizomes were first propagated in the greenhouse before planting, and field-to-field (F2F) transplanting, where rhizomes were directly transplanted from source canebrakes to restoration sites. Rhizomes were collected from four existing canebrakes in Taney …

A Comprehensive Parcel-Level Dataset On Farmland Assessment: Addressing Grid-Cell Data Bias Estimation, Wai Yan Siu, Man Li, Arthur J. Caplan

ODU Articles

Grid-cell data are increasingly used in research due to the growing availability and accessibility of remote sensing products. However, grid-cell data often fails to represent the actual decision-making unit, leading to biased estimates in socio-economic analysis. To this end, this paper presents a comprehensive parcel-level dataset for Salt Lake County, Utah, spanning from 2008 to 2018. This dataset combines detailed spatial and temporal data on land ownership, land use, and preferential farmland tax assessments under the Greenbelt program. Compiled from multiple geospatial sources, the dataset includes nearly 200,000 parcel-year observations, providing valuable insights into landowner decision-making and the impact of …

From Wind To Whales: Potential Hydrodynamic Impacts Of Offshore Wind Energy On Nantucket Shoals Regional Ecology, Eileen E. Hofmann, Jeffrey R. Carpenter, Qin J. Chen, Josh T. Kohut, Richard L. Merrick, Erin L. Meyer-Gutbrod, Douglas P. Nowacek, Kaustubha Raghukumar, Nicholas R. Record, Kelly Oskvig

OES Faculty Publications

The National Academy of Sciences, Engineering, and Medicine convened a committee in June 2023 to assess the potential hydrodynamic and ecological impacts from offshore wind energy development in the Nantucket Shoals region, with particular attention to impacts on the critically endangered North Atlantic right whale (Eubalaena glacialis) that forages on zooplankton aggregations in the region. The assessment suggested that the effects of offshore wind energy development will be difficult to distinguish from the effects of natural variability and climate change in this region. The Consensus Study Report recommendations highlight observational and modeling studies that will advance understanding of …

Pygoscelis Penguins Prefer Different Oceanographic And Terrestrial Habitats During The Austral Summer, Katherine L. Gallagher, Rachel Herman, Katherine Walton, Michael S. Dinniman, Heather J. Lynch

OES Faculty Publications

Pygoscelis penguins interact with both terrestrial and marine environments, especially during the austral summer when they raise their chicks. Accessible ice-free ground spaces serve as locations for penguins to build colonies and successfully raise chicks while the surrounding marine environment serves as the foraging grounds for adult birds. Penguins must be able to navigate through the waters around their colonies to forage for Antarctic krill (Euphausia superba), their primary prey during the austral summer. Krill, whose distributions are driven partially by the surrounding physics and partially by their behaviors, must also be plentiful in the waters near the …

Characterization Of An Acetogenin-Carrying Nanosuspension And Its Effect On Bacteria Of Interest In The Poultry Industry, Brandon A. Lopez-Romero, Gabriela Aguilar-Hernandez, Billy Hargis, Maria De Lourdes Garcia-Magana, Ulises M. Lopez-Garcia, Rosa I. Ortiz-Basurto, Adalberto Zamudio-Ojeda, Juan D. Latorre, Efigenia Montalvo-Gonzalez

Poultry Science Faculty Publications and Presentations

This work aimed to develop a nanosuspension (NSps) as an acetogenin (ACGs) carrier, using soy lecithin (SL) and hydroxypropyl-beta-cyclodextrin (beta CD) named NSps-beta CDSL-ACGs. It was characterized by various spectroscopic techniques (DLS, FTIR, UV-vis diffuse reflectance). Moreover, the NSps morphology was observed by transmission electron microscopy (TEM). Also, the antibacterial activity of NSps-beta CDSL-ACGs was evaluated against strains of interest in the poultry sector. NSps-beta CDSL-ACGs presented nanometric size (207-239 nm), acceptable polydispersity index (PDI) values (0.13-0.17) and a high Z potential value (-47.17-50.36 mV), demonstrating high stability. The presence of ACGs in NSps-beta CDSL-ACGs was confirmed by FTIR analysis. …

Identifying The Impacts Of Land Use/Land Cover Changes On Ecosystem Services From A Geospatial Perspective In Albany County, Kyaw Khaung Thant Zin

Electronic Theses & Dissertations (2024 - present)

Ecosystem services encompass the broad array of direct and indirect advantages that people derive from nature and its ecosystems. Considering accelerating environmental change and degradation, recognizing the importance of these services is more crucial than ever, as they illustrate the many ways in which healthy ecosystems sustain human life. However, these services are diminishing at a rapid and unprecedented rate, raising global concern over both the transformations taking place and their root causes. Among the leading threats, land-use change stands out as a particularly significant one, influenced by a variety of driving factors. Albany County, New York, characterized by its …

Clbbm And Clplt2 Function Redundantly During Both Male And Female Gametophytes Development In Watermelon, Qiyan Liu, Dongfen Han, Jinfan Chen, Jie Wang, Denghu Cheng, Xiner Chen, Jiao Jiang, Shujjuan Tian, Jiafa Wang, Man Liu, Haizheng Xiong, Li Yuan

Horticulture Faculty Publications and Presentations

As a prerequisite for sexual reproduction, gametophyte development is an interesting process involving cell proliferation, differentiation and specialization. Gametogenesis has been extensively explored in model plants, but the regulatory mechanism of gametophyte development largely remains unknown in Cucurbitaceae species. In present study, we have shown that watermelon ClBBM and ClPLT2, two AP2/ERF transcription factors, participated in both male and female gametophyte development. Clbbm and Clplt2 single mutants resembled wild-type phenotypes in both vegetative and reproductive development. But Clbbm/Clplt2 double mutant showed partial pollen abortion and bore less seeds comparing to WT. Our results indicated that the abnormal pollen grains were …

Identification Of Salt Tolerance And Stress Response In Us Department Of Agriculture Tomato Germplasm At The Seedling Stage, Ibtisam Alatawi, Haizheng Xiong, Kenani Chiwina, Hanan Alkabkabi, Qun Luo, Neelendra K. Joshi, Xiaolun Sun, Xuan Zhuang, Kai-Shi Ling, Ainong Shi

Horticulture Faculty Publications and Presentations

Soil salinity is a significant abiotic factor that impedes sustainable crop production in key agricultural regions worldwide. Saline cultivation adversely affects soil quality, whereas the use of saline water for irrigation disrupts the physiological and biochemical processes of plants. Continuous irrigation with high salt concentrations leads to a gradual buildup of soil salinity, thus hindering optimal plant growth and development. Consequently, there is a growing emphasis on breeding salinity-tolerant cultivars of various crops. In this study, 71 tomato accessions sourced from 20 countries and provided by the US Department of Agriculture were evaluated under controlled greenhouse conditions and subjected to …

Artificial Intelligence In Cancer-Related Malnutrition And Cachexia: A Transformative Tool In Clinical Nutrition, Salvatore Carbone

EVMS School of Health Professions Faculty Publications

[Introduction] Malnutrition and cachexia are common complications in cancer patients, and they negatively influence prognosis, treatment efficacy, and tolerability as well as quality of life [[1], [2], [3]]. Accurately identifying and effectively managing malnutrition and cachexia in this population remains a clinical challenge. Conventional validated screening tools may lack the sensitivity and specificity required for early detection and personalized intervention in diverse cancer types and treatment settings [4,5]. Over the last decade, the use of artificial intelligence (AI), including machine learning (ML) and deep learning (DL) strategies, has shown promising results in clinical nutrition, with the potential to revolutionize nutritional …

Long-Term Increases In Wing Length Occur Independently Of Changes In Climate And Climate-Driven Shifts In Body Size, Tiffany Dias, Nathan P. Lemoine, Scott W. Yanco, Marketa Zimova, Rachael A. Bay, Brian C. Weeks

Biological Sciences Faculty Research and Publications

Recent widespread reductions in body size across species have been linked to increasing temperatures; simultaneous increases in wing length relative to body size have been broadly observed but remain unexplained. Size and shape may change independently of one another, or these morphological shifts may be linked, with body size mediating or directly driving the degree to which shape changes. Using hierarchical Bayesian models and a morphological time series of 27 366 specimens from five North American migratory passerine bird species, we tested the roles that climate and body size have played in shifting wing length allometry over four decades. We …

Comprehensive Investigation Of Proteoglycan Gene Expression In Breast Cancer: Discovery Of A Unique Proteoglycan Gene Signature Linked To The Malignant Phenotype, Simone Buraschi, Gabriel Pascal, Federico Liberatore, Renato V. Iozzo

Department of Pathology, Anatomy, and Cell Biology Faculty Papers

Solid tumors present a formidable challenge in oncology, necessitating innovative approaches to improve therapeutic outcomes. Proteoglycans, multifaceted molecules within the tumor microenvironment, have garnered attention due to their diverse roles in cancer progression. Their unique ability to interact with specific membrane receptors, growth factors, and cytokines provides a promising avenue for the development of recombinant proteoglycan-based therapies that could enhance the precision and efficacy of cancer treatment. In this study, we performed a comprehensive analysis of the proteoglycan gene landscape in human breast carcinomas. Leveraging the available wealth of genomic and clinical data regarding gene expression in breast carcinoma and …

How Can University-Community Partnerships Strengthen Food Literacy To Improve Food Access And Food System Resilience In Rhode Island?, Jocelyn Furtado

Student Publications

Nearly two out of every five households in Rhode Island experience difficulties accessing adequate and nutritious food, falling into the category of food insecure. While it is not the responsibility of a sole organization to reverse this complex systemic issue, collaborative efforts are a step toward combating food insecurity and systems resilience through improving food literacy. When accomplished within a community, adequate food literacy can combat food insecurity. To the same effect, food insecurity may cause a lack of food literacy.

To hone in on the relationship of food literacy as it relates to food insecurity and food systems resilience, …

Diversity, Genomics And Antimicrobial Resistance Of Coagulase-Negative Staphylococcus: A Literature Review, Kathleen Okeefe

Electronic Theses & Dissertations (2024 - present)

Members of the gram-positive bacterial genus Staphylococcus have historically been classified into coagulase-positive Staphylococcus (CoPS) and coagulase-negative Staphylococcus (CoNS). This classification is based on the ability of clotting of plasma by the coagulase enzyme, which converts fibrinogen to fibrin. CoNS species are ubiquitous commensals that frequently colonize the skin and mucosal surfaces. They are also opportunistic pathogens implicated in many human and animal infections. The evolutionary history of CoNS has generally been overlooked because of the historical lack of recognition for their clinical importance and poor taxonomic sampling. They are often perceived as being less or non-pathogenic, especially compared to …

Antibody-Induced Multicellular Behaviors Of Salmonella Typhimurium, Samantha K. Lindberg

Electronic Theses & Dissertations (2024 - present)

Salmonella enterica is a globally distributed bacterial pathogen that is commonly acquired through consumption of contaminated food and water. The enterica subspecies includes over 1500 unique subvariants, or serovars, that are classified by antigen presentation. Due to its global environmental prevalence, broad host range, and increasing pathogenicity, serovar Typhimurium is of particular concern for human and animal health, as well as food safety. Once in the gastrointestinal tract, Salmonella Typhimurium (STm) exploits host immune mechanisms, implements an arsenal of virulence factors, and outcompetes the microbiota to invade the intestinal epithelium. While STm infections are generally self-limiting and relatively mild, emerging …

Geogenie: A Deep Learning Approach To Predict Geographic Provenance Of Biodiversity Samples From Genomic Snps, Bradley T. Martin, Zachery D. Zbinden, Michael E. Douglas, Marlis R. Douglas, Tyler K. Chafin

Biological Sciences Faculty Publications and Presentations

Motivation Determining geographic origin of samples is a common objective in wildlife management, forensics, and conservation. Current methods often assume evolutionary models or require extensive reference datasets, which are costly and difficult to develop, that perform poorly with uneven or biased sampling. Supervised deep learning offers a promising alternative by learning complex patterns without prior model specifications. Combined with novel geo-genetic data augmentation and preprocessing techniques, it can reduce reference panel demands and improve performance across diverse sampling schemes, broadening accurate provenance determination to more study systems.Results We present GeoGenIE, an open-source software package powered by PyTorch for geographic provenance …

Resources To Study The Isoforms Of The P53 Family Of Transcription Factors, Dana L. Woodstock

Electronic Theses & Dissertations (2024 - present)

The p53 family of transcription factors regulates diverse gene regulatory networks such as those involved in DNA damage repair, epidermal commitment, and neuronal development. As a result, dysfunction in these pathways lead to numerous human health conditions, including multiple types of cancer and craniofacial developmental disorders. Each family member regulates a distinct gene network leading to varied cellular and organismal phenotypes, but all are capable of regulating programmed cell death, likely due to considerable similarity between protein structure and binding sites in DNA. Analysis of these shared and distinct functions is complicated by each p53 family member gene (TP53, TP63, …

Technological Development Of In-Cell Nmr: Microfluidic, Metabolomic, And Fluxomic Approaches, Nicholas Sciolino

Electronic Theses & Dissertations (2024 - present)

In the fields of structural biology, metabolomics, and fluxomics, there is a driving, technique-based concern when it comes to high-resolution spectrometry and its marriage to biological and physiological relevance. Sample preparation often involves cellular perturbation, lysate separation schemes, combinations with non-biological reagents, and timeline slack. Conceptually, the farther we get from the cell, the greater the potential disparity between what exists in vivo and our in vitro manipulations. This is particularly true when seeking to collect data on transfected targets of interest, and on sensitive metabolic equilibria that occur on the order of minutes. The question remains: if we are …

Physiological Structure, Activity, And Interactions Of The Formin, Human Diaphanous Homologue 1, Aaron Premo

Electronic Theses & Dissertations (2024 - present)

Human Diaphanous Homologue 1 (DIAPH1) is a 143 kDa functional protein that plays a critical role in the regulation of actin dynamics within eukaryotic cells. As a formin, DIAPH1 facilitates the assembly of actin filaments from globular actin monomers, a process essential for cellular structure, motility, and other fundamental cellular processes. Beyond its structural role in actin polymerization, DIAPH1 is implicated in several diseases, including diabetes, cancer, and inflammation, as well as complications like hearing loss. Despite its significance in human health, the functional and structural properties of DIAPH1, particularly in human cells, remain less explored compared to related proteins, …

Hippocampal Insulin Exists! In Vivo Sampling Methods, Basal Concentrations, Recurrent Hypoglycemia, And Behavioral Extracellular Insulin Responses, Starlette R. Douglass

Electronic Theses & Dissertations (2024 - present)

Insulin has widespread actions within the brain, including energy homeostasis, modulation of feeding, and as a key component of memory processes. Further, brain insulin dysfunction correlates with Alzheimer's disease and other neurodegenerative disorders. To this point, measurement of hippocampal insulin has been limited. Determining in vivo hippocampal insulin levels both at a healthy baseline and after, e.g., induction of a disease state or in response to cognitive challenge, is essential to advance our understanding of both insulin's procognitive actions and to guide potential therapeutic interventions.

We first sought to establish a sampling technique for insulin within awake and moving rats …

Conserved A-Rich Regions In The 3’ Utr Of Zika Virus Differentially Affect Viral Gene Expression, Kristen Kaytes

Electronic Theses & Dissertations (2024 - present)

Following its discovery in 1947, Zika virus garnered little attention in the global stage until a rapidly spreading epidemic brough the virus to the global stage in 2015. Continuous advances in research have begun to further the understanding of the molecular biology of Zika virus, however much is still unknown. Much of our understanding of the virus comes from cross reference to other viruses within the same family, such as Dengue virus and West Nile virus. A commonality of these viruses is that they resemble cellular mRNAs and have a single-stranded positive-sense RNA genome that contains a 5’-cap but lacks …

Dna And Protein Determinants For P63 Transcriptional Activity, Abigail Mccann

Electronic Theses & Dissertations (2024 - present)

The transcription factor p63 is critical for development of the epidermis and other epithelial-related structures. Mutations in the DNA-binding domain of p63 lead to a range of human developmental disorders characterized by symptoms such as ectrodactyly, painful skin dysplasia, and cleft lip and palate. The TP63 gene is also amplified in squamous cell carcinomas, contributing to tumor pathogenesis. While the importance of p63 in human health is well established, the mechanisms underlying its control of an essential gene network remain unclear. TP63 encodes multiple isoforms with distinct N- and C-terminal domains. The ∆Np63α isoform is directly linked to epidermal development …

Investigating Rna Dysfunction Of Inherited Neuromuscular And Neurodevelopmental Disease, Jacob H. Schroader

Electronic Theses & Dissertations (2024 - present)

ITPase deficiency is a rare but fatal, autosomal recessive enzyme deficiency involving encephalopathy, microcephaly, congenital cataracts, hypotonia, developmental delay, and dilated cardiomyopathy. Within a decade since the original description of the severe form in humans, there are huge gaps in the field regarding the underlying molecular mechanisms driving pathogenesis resulting from ITPase deficiency. Past studies have focused on characterization of the organism level ITPase-deficient phenotype, but the molecular and cellular characterization remains to be fully described. Due to the biochemical function and established biological role of the ITPase enzyme, investigation into the consequences of inosine accumulation and misincorporation into RNA …

Dictyostelids: The Second Major Group Of Slime Molds, P. Liu, Z.J. Zhang, J.H. Ge, Y. Zou, Z. Li, S. Li, Y. Li, S.L. Stephenson

Biological Sciences Faculty Publications and Presentations

The dictyostelids (also called cellular slime molds or social amoebae) are among the more abundant and widespread groups of microorganisms in terrestrial ecosystems. Despite this fact, they are totally unknown to most people, who sometimes confuse the dictyostelids with myxomycetes (or plasmodial slime molds). The first dictyostelid (Dictyostelium mucoroides) was described by the German Oskar Brefeld in 1869. More than 180 species are now known, and these organisms have been recorded from the high arctic to the subantarctic. The primary microhabitat for dictyostelids is the soil/humus layer on a forest floor, but they also occur in a number of other …

The Nesting Ecology Of Southern Two-Lined Salamanders (Eurycea Cirrigera) In Urban Streams, Leah T. Rittenburg, Emma G. Downing, Todd Pierson

Faculty Articles

Urbanization alters many aspects of stream ecosystems, and its effects upon wildlife will likely increase as more watersheds become developed. This may be particularly true for species with complex life histories, which could be vulnerable in different life stages. Eurycea cirrigera (Green) (Southern Two-lined Salamanders) are common members of many stream communities in the southeastern United States, and they prefer to nest in cobble with little sedimentation—a microhabitat that is threatened by stream degradation. We collected data on the nesting ecology of this amphibian species in urban streams in Atlanta, Georgia, to evaluate microhabitat availability, nest-site selection, and the influence …

Loss Of Endogenous Circadian Clock Function In Mice Alters Respiratory Cycle Timing In A Time Of Day- And Sex-Specific Manner, Aaron A. Jones, Deanna M. Arble

Biological Sciences Faculty Research and Publications

Resting breathing and ventilatory chemoreflexes are regulated in a 24-hr manner by the endogenous circadian clock. However, it is unclear how circadian biology influences different phases of the breath-to-breath respiratory cycle which are predominantly controlled by pontomedullary regions of the brainstem. Here, we performed whole-body plethysmography during quiet wakefulness in young adult male and female mice lacking the core clock gene Brain and Muscle Arnt-like 1 (BMAL1) to determine the extent to which the molecular clock affects respiratory cycle timing and ventilatory airflow mechanics. Breath waveform analysis revealed that male BMAL1 knockout (KO) mice exhibit time of day-specific differences in …