Characterizing Mechanisms Of Dna Repair And Genome Stability, Joshua Turner

All Dissertations

Every day our cells are bombarded with DNA lesions that threaten the stability of our genome. To help maintain genomic integrity our cells evolved to have a network of enzymes dedicated to repairing DNA lesions. Upon encountering a site of DNA damage, a cell recruits enzymes that remodel the stalled replication fork by reannealing the newly synthesized DNA together known as fork regression. Loss of fork regression activity has been shown to promote replication stress resistance after induced DNA damage. In this thesis, I discuss the role F-Box Helicase 1 (FBH1) plays in fork regression and how FBH1 promotes the …

Leveraging High-Frequency Water Quality Data And Machine Learning For Monitoring Harmful Algal Blooms, Ibrahim Busari

All Dissertations

Freshwater management is one of the most critical resources on the earth due to the plethora of water use and its limited availability. Increased algae proliferation is one of the significant problems of freshwater bodies that is triggered by nutrient enrichment and enabling conditions such as light and warm temperatures. This algal proliferation is toxic to the ecosystem through their biomass and potential toxin production that can cause hypoxic conditions and is often referred to as Harmful Algal Blooms (HABs). Current monitoring approaches include laboratory analysis of water samples to observe algal cells, monitoring of water quality parameters using water …

Advancing Substance Use Disorder Treatment Using Genomics And Metabolomics, Lindsey Contella

All Dissertations

Advancing our understanding of genetic, metabolic, and environmental factors in substance use disorder (SUD) could lead to more effective therapies. In 2022, 16.5% of the U.S. population was diagnosed with SUD, yet current treatments lack efficacy for all patients, making a precision medicine approach crucial. This dissertation explores SUD's relationship with tryptophan (TRP) metabolism through the kynurenine pathway (KP) as a potential therapeutic target. Chapter I reviews current knowledge on SUD and KP. Chapter II identifies how SUD alters KP metabolite concentrations, identifying a reduced concentration of the neuroprotective metabolite, kynurenic acid (KA) and elevated concentrations of the neurotoxic metabolite, …

Behavior In Phelan-Mcdermid Syndrome: Clinical Characteristics, Genetic And Metabolic Contributions, And Evaluation Of Behavioral Assessment Tools, Emily Payne

All Dissertations

Phelan-McDermid syndrome (PMS) is characterized by genetic and phenotypic variability with varying levels of developmental delay, intellectual disability (ID), autism spectrum disorder (ASD), speech delay, minor dysmorphic features, and behavioral issues. Genetic causes of PMS involve deletions in the 22q13.3 region or pathogenic/likely pathogenic variants in SHANK3. Due to the significant heterogeneity and complexities seen in individuals with PMS, there are numerous challenges surrounding research, accurate diagnoses, assessments, and the creation of treatments. Behavioral issues are present in the majority of individuals with PMS, including lower levels of adaptive behavioral skills needed for daily functioning, disruptive behaviors, restricted and …

Drosophila Model Of Cocaine Use Disorder, Jeffrey Hatfield

All Dissertations

Cocaine use disorder (CUD) is a major public health challenge. While the primary mechanism of action of cocaine has been well characterized, and family studies have identified a strong genetic component, the specific genetic factors that influence susceptibility to development of CUD remain poorly understood. Genetic studies of cocaine use disorder are difficult in humans, but can be readily performed in Drosophila, where environment, genetic background, and cocaine exposure can be controlled. Drosophila exhibit behavioral and transcriptomic responses to cocaine, which binds to the dopamine transporter in fruit flies as it does in humans. Here, we use Drosophila to …

Quantifying Effects Of Partial Genetic Backgrounds To Decode Genetic Drivers Of Clinical Phenotypes, Rini Pauly

All Dissertations

Understanding partial genetic backgrounds illuminates the genetic architecture of complex traits and diseases, revealing how diverse genetic backgrounds contribute to phenotypic diversity. With this approach we could advance personalized medicine by identifying population-specific variants affecting drug metabolism, tailoring medical treatments to individual genetic profiles. Additionally, it offers evolutionary insights into human history, shedding light on past migrations and the spread of genetic traits. This research leverages cutting-edge statistical genetics techniques and novel machine learning approaches to efficiently analyze extensive population genomic datasets, distilling complex admixture signals into meaningful genetic markers.

The study introduces Admix-AI, an innovative convolutional neural network-based tool …

Acupressure For Rescue Treatment For Postoperative Nausea And Vomiting, Kimberly Amerson, Jennifer Smith

Doctoral Projects

This doctoral project investigates acupressure as a non-pharmacological option for PONV management, focusing on the P6 point (Neiguan). The physiological processes involved in regulating nausea are highlighted in the discussion of the mechanisms of action. This research also looks at the valuable uses of acupressure in clinical settings and the education of PACU nurses and anesthesia providers. By utilizing knowledge, including acupressure, PACU nurses and anesthesia providers can improve satisfaction with care, expedite recovery, and boost overall patient well-being. This doctoral project strives to decrease healthcare costs associated with prolonged hospital stays, optimize patient recovery experiences, expand knowledge for PACU …

The Mayfly Newsletter, Donna Giberson

The Mayfly Newsletter

The Mayfly Newsletter is the official newsletter of the Permanent Committee of the International Conferences on Ephemeroptera.

Investigate The Possibility Of Producing Healthier, Safer Peanuts Through Molecular Breeding And Novel Fungal Pathogen Management Strategies, Tariq Alam

All Dissertations

Peanut allergy, a critical health concern with high morbidity and mortality rates, is a leading cause of fatal anaphylactic reactions in the United States. Managing peanut allergy is challenging due to the prevalence of peanuts in processed foods and the risk of contamination. This dissertation evaluates the U.S. peanut mini-core collection for four major immunogenic proteins, Ara h1, Ara h2, Ara h3, and Ara h6, using gel electrophoresis, enzyme-linked immunosorbent assay, liquid chromatography, and mass spectrometry. The study identified 26 genotypes with reduced concentrations of allergenic proteins. Genome-wide association studies (GWAS) of protein traits revealed 10 significant SNPs and identified …

A Multiplex Metabolomic Approach For Quality Control Of Spirulina Supplement And Its Allied Microalgae (Amphora & Chlorella) Assisted By Chemometrics And Molecular Networking, Nesrine Hegazi, Amira R. Khattab, Hamada H. Saad, Bishoy Abib, Mohamed A. Farag

Faculty Journal Articles

Microalgae species are of economic importance regarded as “green gold” being rich in bioactive compounds. Spirulina and Chlorella are the most popular microalgal species and are marketed as healthy food supplements. At the same time, Amphora holds potential as a source of healthy lipids and essential fatty acids. Yet, there are considerable variations in their reported chemical composition, and less is known about their compositional differences. A multiplexed metabolomic approach was adopted for the quality control (QC) of Spirulina supplements and to compare its constitutive metabolome to Chlorella and Amphora. The adopted protocol comprised gas chromatography-mass spectrometry (GC–MS), ultra-high performance …

Genome-Wide Expression Profiling And Phenotypic Analysis Of Downstream Targets Identify The Fox Transcription Factor Jumeau As A Master Regulator Of Cardiac Progenitor Cell Division, M. Rezaul Hasan

Bakerman Student Research Awards

Forkhead box (Fox) transcription factors (TFs) mediate multiple conserved cardiogenic processes in both mammals and Drosophila. Our prior work identified the roles of two Drosophila Fox genes, jumeau (jumu) and Checkpoint suppressor 1-like (CHES-1-like), in cardiac progenitor cell specification and division, and in the proper positioning of cardiac cell subtypes. Fox TF binding sites are also significantly enriched in the enhancers of genes expressed in the heart, suggesting that these genes may play a core regulatory role in one or more of these cardiogenic processes. We identified downstream targets of Jumu by comparing transcriptional expression profiles of flow cytometry-sorted mesodermal …

Quantifying The Mechanisms Behind Carbon Sequestration And Soil Health Following Compost Application In A Rangeland Chronosequence, Grace Damaschino

Master's Theses

Compost application to rangelands has the potential to sequester carbon (C) and add essential plant nutrients to the soil. The California Department of Food and Agriculture's (CDFA) Healthy Soils Project (HSP) provides financial support to farmers and landowners to implement innovative practices that promote soil health. The CDFA is currently recommending compost application rates of 6-10 tons per acre; however, previous research suggests that degraded soils may require a larger dose of compost to overcome limitations, therefore this recommendation might not meet soil health or soil carbon sequestration objectives. This study examines the compost rate effects on soil health, while …

Advancing Molecular Tools For The Study Of Rubus Viruses, Andrea Sierra-Mejia

Graduate Theses and Dissertations

Since blackberry yellow vein disease (BYVD) was first described, the blackberry virome has expanded significantly. BYVD is a complex disease associated with over ten viruses, yet the role of each virus in its etiology remains understudied. Studying the effect of each virus in disease development requires the identification of single infections; however, this task has been difficult for BYVD, with all field collected material over the past two decades consistently found infected by multiple viruses. Given the diversity of viruses associated with the disease and their different modes of transmission, obtaining pure virus cultures necessitate transmission of individual viruses via …

Effects Of Fast And Slow-Wilting Soybean Genotypes On Plant-Herbivore Interactions, Jessica Ayala

Graduate Theses and Dissertations

Soybean [Glycine max (L.) Merr.] is one of the most important food crops in the world due to its multiple uses in agriculture sector. A major limiting factor in soybean production system is drought stress, causing up to 80% reduction in yield. Due to climate change and associated rise in ambient temperatures, water scarcity is a major concern in crop production, and consequently researchers are turning to soybean accessions that demonstrate better water use efficiency (WUE) traits. However, field grown soybean is also under severe pressure from insect herbivores, often accounting for a 30% reduction in yield. Among these, …

Acute Alpha-Glycerylphosphorylcholine Supplementation Enhances Cognitive Performance In Healthy Men, Chad M. Kerksick

Faculty Scholarship

Background: Choline is an essential nutrient required for proper cell functioning. Due to its status as a precursor to acetylcholine, an important neurotransmitter connected to cognition and neuromuscular function, maintaining or enhancing choline levels is of interest. Supplementation with alpha-glycerylphosphorycholine (A-GPC) can maintain choline levels, but its ability to offer support towards cognition remains an area of ongoing research. Methods: Using a randomized, double-blind, placebo-controlled, crossover approach, 20 resistance-trained males (31.3 ± 11.0 years, 178.6 ± 7.3 cm, 84.6 ± 11.4 kg, 15.4 ± 5.6% body fat) consumed either a placebo (PL), 630 mg A-GPC (HD), or 315 mg (LD) …

Effects Of Acacia Catechu And Scutellaria Baicalensis Extract On Cognitive Function In A Healthy Adult Population: A Double-Blind, Randomized, Placebo-Controlled Trial, Anthony M. Hagele, Petey Mumford, Diego De Gregorio, Connor J. Gaige, Ethan R. Hoffman, Kristen N. Gross, Kevin F. Holley, Leah E. Allen, Chad M. Kerksick

Faculty Scholarship

Flavonoids, known for their neuroprotective properties, are abundant in Acacia catechu and Scutellaria baicalensis. Yet, human studies on their combined effects are limited.

Objective

This study evaluated the cognitive effects of combined Acacia catechu and Scutellaria baicalensis supplementation in healthy adults.

Methods

In a randomized, double-blind, placebo-controlled trial, 26 males and 59 females (N = 85; 43 ± 8 yrs) consumed the test product (TP) containing 240 mg stem extract of Scutellaria baicalensis and 51 mg heartwood extract of Acacia catechu (UP326, Unigen, Tacoma, WA USA) or placebo (PLA) for four weeks. Cognitive function and biomarkers were assessed throughout …

International Society Of Sports Nutrition Position Stand: Β-Hydroxy-Β-Methylbutyrate (Hmb), John A. Rathmacher, Lisa M. Pitchford, Jeffrey R. Stout, Jeremy R. Townsend, Ralf Jägerg, Richard B. Kreider, Bill I. Campbell, Chad M. Kerksick, Patrick S. Harty, Darren G. Candow, Brandon M. Roberts, Shawn M. Arent, Douglas S. Kalman, Jose Antonio

Faculty Scholarship

Position Statement: The International Society of Sports Nutrition (ISSN) bases the following position stand on an analysis of the literature regarding the effects of β-Hydroxy-β-Methylbutyrate (HMB). The following 12 points have been approved by the Research Committee of the Society: 1. HMB is a metabolite of the amino acid leucine that is naturally produced in both humans and other animals. Two forms of HMB have been studied: Calcium HMB (HMB-Ca) and a free acid form of HMB (HMB-FA). HMB-FA appears to lead to increased appearance of HMB in the bloodstream when compared to HMB-Ca, though recent results are mixed. 2. …

Dileucine Ingestion, But Not Leucine, Increases Lower Body Strength And Performance Following Resistance Training: A Double-Blind, Randomized, Placebo-Controlled Trial, Anthony M. Hagele, Joesi M. Krieger, Connor J. Gaige, Kevin F. Holley, Kristen N. Gross, Joshua M. Ianotti, Leah E. Allen, Paige J. Sutton, Logan S. Orr, Petey W. Mumford, Martin Pupura, Ralf Jager, Chad M. Kerksick

Faculty Scholarship

Background

The essential amino acid leucine (LEU) plays a crucial role in promoting resistance-training adaptations. Dileucine (DILEU), a LEU-LEU dipeptide, increases MPS rates, however its impact on resistance training outcomes remains unexplored. This study assessed the effects of DILEU supplementation on resistance training adaptations.

Methods

Using a randomized, double-blind, placebo-controlled approach, 34 resistance-trained males (age: 28.3 ± 5.9 years) consumed 2 grams of either DILEU monohydrate (RAMPS™, Ingenious Ingredients, L.P.), LEU, or placebo (PLA) while following a 4-day per week resistance training program for 10 weeks. Changes in body composition, 1-repetition maximum (1RM) and repetitions to failure (RTF) for leg …

Part Ii. Common Questions And Misconceptions About Creatine Supplementation: What Does The Scientific Evidence Really Show?, Jose Antonio, Ann F. Brown, Darren G. Candow, Philip D. Chilibeck, Stacey J. Ellery, Scott C. Forbes, Bruno Gualano, Andrew R. Jagim, Chad Kerksick, Richard B. Kreider, Sergej M. Ostojic, Eric S. Rawson, Michael D. Roberts, Hamilton Roschel, Abbie E. Smith-Ryan, Jeffrey R. Stout, Mark A. Tarnopolsky, Trisha A. Vandusseldorp, Darryn S. Willoughby, Tim N. Ziegenfuss

Faculty Scholarship

Creatine monohydrate supplementation (CrM) is a safe and effective intervention for improving certain aspects of sport, exercise performance, and health across the lifespan. Despite its evidence-based pedigree, several questions and misconceptions about CrM remain. To initially address some of these concerns, our group published a narrative review in 2021 discussing the scientific evidence as to whether CrM leads to water retention and fat accumulation, is a steroid, causes hair loss, dehydration or muscle cramping, adversely affects renal and liver function, and if CrM is safe and/or effective for children, adolescents, biological females, and older adults. As a follow-up, the purpose …

Common Questions And Misconceptions About Energy Drinks: What Does The Scientific Evidence Really Show?, Jose Antonio, Brandi Antonio, Shawn M. Arent, Darren G. Candow, Guillermo Escalante, Cassandra Evans, Scott Forbes, David Fukuda, Maureen Gibbons, Patrick Harty, Andrew R. Jagim, Douglas S. Kalman, Chad Kerksick, Jennifer A. Kurtz, Joseph Lillis, Lonnie Lowery, Gianna F. Mastrofini, Scotty Mills, Michael Nelson, Flavia Pereira, Justin Roberts, Michael Sagner, Jeffrey Stout, Jaime Tartar, Adam Wells

Faculty Scholarship

Energy drinks are a commonly consumed beverage, and studies suggest a possible performance-enhancing effect. A Google Scholar search using the keywords “energy drinks” and “exercise” yields numerous results, underscoring the voluminous research on this topic. However, there are questions regarding the effectiveness and safety of energy drinks. These questions include, but are not limited to: (1) What are the main active ingredients in energy drinks? (2) Do energy drinks assist in weight management? (3) Do energy drinks enhance aerobic performance? (4) Do energy drinks enhance athletic speed? (5) Do energy drinks improve reaction time? (6) Do energy drinks enhance lean …

Genetic Aspects Of Resilience In The Foundational Seagrass Halodule Wrightii: The Role Of Genetic Variation And Gene Expression In Maintaining Primary Production, Anastasia M. Konefal

LSU New Orleans Theses and Dissertations

Seagrasses are coastal foundation species which significantly contribute to the primary production of shallow water ecosystems and provide several services. However, seagrasses, like other coastal foundation species, are threatened by myriad anthropogenic stressors. Conservation is difficult in ecosystems under multiple threats where the factors that contribute to production are not easily elucidated. Genetic diversity and gene expression may be related to the function and stability of populations but are rarely considered in management plans. High genetic diversity and the associated trait variation within a population are known to contribute to higher function and stability of a population. Additionally, individual-level changes …

Environmental Dna Identifies Coastal Plant Community Shift 1,000 Years Ago In Torrens Island, South Australia, Nicole R. Foster, Alice R. Jones, Oscar Serrano, Anna Lafratta, Paul S. Lavery, Kor-Jent Van Dijk, Ed Biffin, Bronwyn M. Gillanders, Jennifer Young, Pere Masque, Patricia S. Gadd, Geraldine E. Jacobsen, Atun Zawadzki, Andria Greene, Michelle Waycott

Research outputs 2022 to 2026

Anthropogenic activities are causing detrimental changes to coastal plants– namely seagrass, mangrove, and tidal marshes. Looking beyond recent times to past vegetation dynamics is critical to assess the response and resilience of an environment to change. Here, we develop a high-resolution multi-proxy approach, providing a new evidence base to decipher long-term change in coastal plant communities. Combining targeted environmental DNA analysis with chemical analysis of soils, we reconstructed 4,000 years of change at a temperate wetland on Torrens Island South Australia and identified an ecosystem shift that occurred ~ 1000 years ago. What was once a subtidal seagrass system shifted …

Patterns Of Carbon And Nitrogen Accumulation In Seagrass (Posidonia Oceanica) Meadows Of The Eastern Mediterranean Sea, Eugenia T. Apostolaki, Paul S. Lavery, Victoria Litsi-Mizan, Eduard Serrano, Karina Inostroza, Vasilis Gerakaris, Thanos Dailianis, Julius Glampedakis, Tara Holitzki, Erik Johnson, Miguel A. Mateo, Oscar Serrano

Research outputs 2022 to 2026

The variability in stocks and accumulation rates of organic carbon (Corg), nitrogen (N), and carbonate (CaCO3) was studied in fifteen Posidonia oceanica meadows spread throughout the South Aegean Sea (Greece). In addition, the abiotic and biotic drivers determining the pattern of variability in the accumulation rates were assessed by exploring the influence of sediment characteristics, seagrass traits, and environmental settings. The meadows supported on average (±STDEV) 14.6 ± 5.0 kg Corg m−2, 0.47 ± 0.17 kg N m−2, and 249 ± 210 kg CaCO3 m−2 in the top meter of their sediments, with mean accumulation rates over the last 500 …

Genomic Insights Into Key Mechanisms For Carbon, Nitrogen, And Phosphate Assimilation By The Acidophilic, Halotolerant Genus Acidihalobacter Members, Himel Nahreen Khaleque, Homayoun Fathollahzadeh, Anna H. Kaksonen, Jorge Valdés, Eva Vergara, David S. Holmes, Elizabeth L.J. Watkin

Research outputs 2022 to 2026

In-depth comparative genomic analysis was conducted to predict carbon, nitrogen, and phosphate assimilation pathways in the halotolerant, acidophilic genus Acidihalobacter. The study primarily aimed to understand how the metabolic capabilities of each species can determine their roles and effects on the microbial ecology of their unique saline and acidic environments, as well as in their potential application to saline water bioleaching systems. All four genomes encoded the genes for the complete tricarboxylic acid cycle, including 2-oxoglutarate dehydrogenase, a key enzyme absent in obligate chemolithotrophic acidophiles. Genes for a unique carboxysome shell protein, csoS1D, typically found in halotolerant bacteria but not …

(Featured Artist) The Aromatic Herb Garden, Sophia Samra

The Synapse: Intercollegiate science magazine

No abstract provided.

Evaluating Corn, Tall Fescue And Canola Growth On Sediments Dredged From The Lorain Harbor, Maureen E. Roddy, Emily Kalhert, Corry T. Platt, Ashley N. Julian, Megan A. Rúa

Biological Sciences Faculty Publications

Soil degradation is a worldwide problem, causing the declining performance of many plant species. Recently, the application of sediments dredged from aquatic waterways has received attention for their potential as an organic amendment to revive degraded agricultural soils. In Ohio, dredged sediment research has largely focused on the success of corn (Zea mays) or soybean (Glycine max) following the application of dredged sediments from the Toledo Harbor, neglecting the potential for dredged sediments from the other eight harbors and waterways to change plant performance as well as failing to quantify benefits for other commonly grown crops in the region. In …

Phytoplankton Responses To Changing Irradiance And Carbon Fertilization, Alison Siersma

Graduate Theses and Dissertations (2019 - present)

Phytoplankton play a crucial role in marine ecosystems due to their innate ability to fix carbon. As atmospheric CO2 levels continue to rise from fossil fuel combustion, the resulting increase in dissolved CO2 and the concurrent decrease in ocean pH are likely to impact the phytoplankton community. The response of phytoplankton to elevated CO2 can vary significantly among species and environmental conditions (e.g. light, temperature, nutrient availability). To address these variations, an experiment was conducted using a controlled photobioreactor system, maintaining high and low light, constant temperature, nutrient levels, and two pCO2 concentrations. This study focused on two regionally relevant …

Quantifying Temperature Effects On Development Rate And Plant Quality Of Compact Container-Grown Tomato, Morgan Humphrey, Ryan W. Dickson, Sonali Padhye

Horticulture Faculty Publications and Presentations

Mean daily temperature effects on plant development rates and quality were evaluated for compact container-grown tomato (Solanum lycopersicum). Compact tomato varieties ‘Siam’ and ‘Red Velvet’ were grown in greenhouses at 18 to 26 °C (Expt. 1) and 20 to 30 °C (Expt. 2) under supplemental high-pressure sodium lighting and 16-h photoperiod. The number of days to first open flower, first ripe fruit and from flower to ripe fruit were measured and development rates calculated by taking the reciprocal (e.g., 1/d). Temperature effects were predicted by fitting a linear (for first open flower) and a nonlinear exponential function (for …

Predicting Agricultural Sciences Students’ Media Literacy In A Post-Truth Era, Abigail Durheim, Kasey Harmon, Taylor Ruth, Cara Lawson

Journal of Human Sciences and Extension

As more individuals turn to various forms of online media to seek information, misinformation and skepticism are on the rise when considering news media. Media literacy, or how individuals evaluate information they see in the news media, is critical to addressing this growing problem. This study aimed to explore the predictors of agricultural sciences students’ perceived news media literacy to gather preliminary data around this topic. Through an online survey, students enrolled in an agricultural communication class at the University of Nebraska-Lincoln completed a literacy reflection assignment. Students were asked to answer questions about their news media use, perceived media …

Exploring Diet Quality, Food Insecurity, And Health Status Among Utah Residents, Palak Gupta, Lendel Narine

Journal of Human Sciences and Extension

A lower-quality diet is a significant contributor to preventable mortality worldwide. This study investigated the intricate relationships between diet quality, food insecurity, and health status among residents in Utah. Using a cross-sectional survey design with a sample size of 1,522 participants, data were collected through an online survey focusing on household characteristics, diet quality, health status, and food security. The primary exposure, household food insecurity, was assessed using a validated 6-item scale, while diet quality was measured through a modified Rapid Eating Assessment for Participants– Shortened Version (REAP-S). The findings revealed an association between very low food security and poor …