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Investigating The Effects Of Sod1 Knockout On Oxidative Stress And Stress Coping Styles In Zebrafish Using Crispr Technology, Tai Prauner, Ryan Wong

Theses/Capstones/Creative Projects

Reactive oxygen species are byproducts of cellular metabolism that, when not efficiently neutralized, can damage DNA, proteins, and lipids. Superoxide dismutase 1 (SOD1) is an antioxidant enzyme that converts superoxide radicals into less harmful molecules. While its molecular function is well documented, the role of SOD1 in shaping stress-related behavior remains underexplored. This project aimed to establish foundational tools for studying the behavioral impact of SOD1 knockout across proactive and reactive stress-coping styles in zebrafish.

To support future gene-editing experiments, microinjection and breeding protocols were refined across wildtype AB, proactive, and reactive zebrafish lines. No embryos were injected with CRISPR-Cas9 …

What’S The Best Way To Store Toxic 1080 Baits?, Heather M. Crawford, Ricarda Fenske, Gerard Smith, Teen Ryan, Jamie (Frog) Taylor, Daniel Carlisle, Debbie Dowden, Dean Butcher, Tracey L. Kreplins, James Miller, Malcolm S. Kennedy, Patricia A. Fleming

Biosecurity Research Articles

Being able to store toxic baits could allow livestock producers to target ‘hot spots’ of predator activity, supplementing or even replacing broadscale baiting, therefore avoiding potential risk of bait-resistant populations. We compared 1080 dose recovered from dried meat baits (DMB; camel, horse and kangaroo) and sausage baits stored by different methods (shed, locked transport box, freezer, cryo-vacuumed) to identify whether they were still lethal, and address concern that freezing/thawing could result in loss of the water-soluble 1080 toxicant. We developed a bait collection method to halt microbial activity (preserving 1080 dose), al-lowing collection of baits manufactured under field conditions by …

Decoding Bacterial Resilience: Srnas And Sigma Factors In Stress Adaptation And Persistence Of Salmonella, Anita Nguyen

Honors Theses

Small RNAs (sRNAs) are noncoding RNA molecules in bacteria that function primarily to regulate gene expression, including those associated with stress. The Borchert Lab has identified 173 sRNAs and > 500 sRNAs that are responsive to desiccation and carbon starvation (c-starvation), respectively. Prokaryotic transcription involves an RNA Polymerase (RNAP) that transcribes DNA into RNA. RNAP involves sigma factors, which recognize promoters for the initial steps of RNA synthesis. The Borchert Lab has determined that there are significant overlaps between sRNAs expressed in cells subjected to both short-term durations and long-term durations of carbon starvation. Salmonella enterica serovars can have outbreaks associated …

Toxicity And Biodegradability Of Novel Boronium Vs Conventional Ammonium-Based Antimicrobial Compounds In Wastewater Treatment Systems, Noor Shalan

Honors Theses

Quaternary ammonium compounds (QACs) are highly effective as disinfectants, herbicides, and pesticides; thus, overuse causes elevated levels of residual toxicity in domestic and industrial wastewater. QACs can be toxic to essential bacteria breaking down pollutants in wastewater treatment plants (WWTPs) and can remain untreated in effluent, harming the environment, and contributing to antibiotic resistance, posing risks to human health. Novel boronium-based antimicrobial compounds have demonstrated efficacy in eliminating bacteria, fungi, and viruses. If the boronium compounds exhibit lower residual toxicity, they could offer a promising alternative to QACs. Because these compounds are still in development, their potential toxicity to the …

Ghosts In Glass: Ghost Crabs As Judges Of Glass Sand For Coastal Restoration, Emily Parrish

Honors Theses

Over 60% of the Gulf of Mexico coastline is actively eroding, which has resulted in thousands of miles of lost coastline over the last 100 years. This drastic loss of coastal land highlights the dire need for coastal restoration across the entirety of the Gulf Coast. A vital aspect of restoring these eroded areas is replenishing eroded substrate, traditionally conducted through offshore dredging of substrates which comes with high economic and ecological costs. Recycled glass sand may be able to fill this role and reduce our reliance on dredging while lowering the amount of glass waste entering landfills each year. …

Fouling-Resistant Voltammetric Xylazine Sensors For Detection Of The Street Drug “Tranq”, Ann Holland Wemple

Honors Theses

As the opioid crisis continues to wreak havoc on a national and global scale, it is increasingly critical to develop methodologies to detect the most dangerous of these drugs as fentanyl and its derivatives have orders of magnitude higher potency than morphine. Recently, the scientific challenge for chemical detection of fentanyl and its derivatives has been complicated by both the constantly increasing synthetic variations of the drug as well as the expanded use of adulterants. One tragically consequential example is the nocuous street drug known as “Tranq” which combines fentanyl or a fentanyl derivative with the veterinary sedative Rompun®, chemically …

Sheep And Goat Industry Funding Scheme 2023-24 Annual Report, Department Of Primary Industries And Regional Development, Western Australia

Biosecurity published reports

I am pleased to present the 2023-24 annual report for the Sheep and Goat Industry Funding Scheme (Sheep and Goat IFS) to our participants, key stakeholders in the Western Australian (WA) sheep and goat industry, and the Minister for Agriculture and Food.

The WA sheep and goat industry has faced a challenging year. After a period of relative stability between 2010 and 2019, the WA flock has continued to decline since 2020, reaching its lowest point since 1952. This downward trend is expected to continue due to local factors such as increased turn-off and seasonal conditions, further compounded by political …

Negotiating Food Security, Maria Cudowska

Journal of Food Law & Policy

In the United States and worldwide, nutrition and food emerge as both high-profile public policy targets and as fundamental aspects of the right to self-determination. This Article examines how national security impacts food security in the United States. It explores conflicts and synergies between municipal, state, and federal law developments related to the right to food and investigates recent developments in how those commitments have been negotiated. The challenge and nebulous justiciability of the right to food can be in part attributed to existing global and national systems, which include supply chains, welfare programs, and foreign investment in the U.S. …

A Genetic And Spatial Analysis Of The Last Megafaunal Species (Tapirus Terrestris) In The Paraguayan Dry Chaco Forest, Emily Bowers

LSU New Orleans Theses and Dissertations

No abstract provided.

Investigating Evolution Through The Lens Of Ai-Driven Protein Exploration And Phylogenetic Modeling, Mataya Duncan

Graduate Theses and Dissertations

Recent advances in computational biology, artificial intelligence, and sequencing technologies have enabled new perspectives for addressing longstanding questions in evolutionary biology. Increased computational power has made large-scale simulations feasible for investigating diverse aspects of evolutionary and phylogenetic modeling. Similarly, deep learning algorithms now allow for the prediction of reasonably accurate tertiary protein structures, unlocking the potential for investigating diversity and evolution of protein structure across a broad range of organisms. This thesis presents two studies that target different aspects of evolutionary inference from unique perspectives. Yet, the share an overarching goal of presenting new perspectives on the evolutionary basis of …

Substrate Complexity Is Not Correlated With Skin Pattern Complexity In Callistoctopus Furvus, Emily Lekas

Honors Theses

Callistoctopus furvus is an understudied, nocturnal octopus that inhabits shallow, subtropical waters in the western Atlantic. This species relies on camouflage to blend in to diverse environments to escape predators. To understand the relationship between substrate and skin patterning in this species, we used second-by-second analysis of video data recorded in the field. We compared frequencies of four substrate types (sand, rock, algae, and seagrass) ranked by contrast across ten skin patterns displayed by C. furvus. Chi-squared analyses showed significant results that the four substrates were unevenly represented in every skin pattern. However, the data did not support our hypothesis …

A Bishnoi Woman’S Odhani: Gendered Labor, Environmental Ethics, And Textile Traditions In Rajasthan, Nidhi Patel

Department of Anthropology

This report examines an embroidered odhani (woman’s shawl) attributed to a Bishnoi artisan from Rajasthan, India. The odhani is housed in the May Weber Ethnographic Study Collection at Loyola University Chicago. Close analysis of technique and contextual evidence is used to reattribute the textile, which was originally mislabeled and situates it within the contexts of gendered labor and environmental ethics within the Bishnoi community. Utilizing the frameworks of materialist and eco-spiritual feminism, the report argues that the odhani functions as a site of ecological resistance, cultural transmission, and women’s embodied knowledge, as well as a garment.

Translation Of The Carcinogenic Dna Breakage-Repair Inhibition Mechanism For Hexavalent Chromium To Its Key Targets: Lung Epithelial Cells, Lung Tissue And Impacts On The Genome., Idoia Meaza Isusi

Electronic Theses and Dissertations

Lung cancer is the leading cause of cancer death worldwide. Hexavalent chromium [Cr(VI)] is a human lung carcinogen with widespread occupational and environmental exposure. Despite the known health risks, how Cr(VI) causes lung cancer remains unclear. This dissertation investigates the mechanisms of Cr(VI)-induced carcinogenesis. Cr(VI) causes DNA damage, specifically DNA double strand breaks, and inhibits homologous recombination repair, a high-fidelity repair pathway. Unrepaired DNA double strand breaks or those repaired through error-prone pathways, progress to chromosomal damage, and chromosome instability. The latter is a common characteristic of Cr(VI)-exposed cells, and a hallmark of lung cancer. Although the mechanism of Cr(VI)-induced …

The Effects Of Geographic Isolation And Anthropogenic Activity On The Social Behavior Of Caribbean Green Monkeys., Rose Amrhein

Electronic Theses and Dissertations

Green monkeys (Chlorocebus sabaeaus) arrived to the Caribbean with the Trans-Atlantic slave trade. Since then, they have experienced unique environments to those of their native ranges in West Africa. Additionally, recent taxonomic changes within the genus make previous knowledge about the species hard to determine to be accurate. In this dissertation, I both assess some of the effects the island environment may have had on monkey behavior as well as build on the understanding of their vocal communication across three islands: Barbados, St. Kitts, and St. Martin. In chapter one, I investigate how human activity in Barbados affects …

Sars-Cov-2 Modulates Pla2g2d/Pgd2 Signaling To Manipulate Host Immune Response To Increase Disease Severity., Dante L. Hamiel

Electronic Theses and Dissertations

Background: Previous studies suggested that SARS-CoV-2 infection could cause diverse immune and metabolic dysregulations, although the underlying mechanisms remain poorly understood. In addition, viruses may escape the immune response by modulating cellular metabolism, mitochondria, and protein functions indicating that immune or metabolic components may represent novel targets for anti-viral strategies. However, whether immune and metabolic disorders interact or affect each other waits to be determined. On the other hand, previous investigations identified the critical roles of a cell membrane-bound phospholipase PLA₂G2D and its downstream products PGD₂ in regulating the metabolism and inflammation in respiratory system. More importantly, …

Fc Gamma Receptors Facilitate Antigenic Modulation Of Lilrb4 And Function As Predictive Biomarkers In Acute Monocytic Leukemia, Joshua Morse

Dissertations and Theses (Open Access)

Acute monocytic leukemia (monocytic AML) is a subtype of AML marked by a proliferation of abnormal monoblasts. This subtype represents approximately 10% of AML cases. The prognosis of monocytic AML is poor, with a 5-year survival of ~30%. Most patients are diagnosed at an age when they are unlikely to survive first-line non-targeted cytotoxic chemotherapy as a bridge to hematopoietic stem cell transplant (HSCT). Even patients who achieve remission commonly relapse. This population of patients would greatly benefit from precision-targeted therapies but currently there are none approved for monocytic AML.

Leukocyte immunoglobulin-like receptor B4 (LILRB4) is an immune checkpoint expressed …

Expanding Inducible Epithelial Resistance Against Pneumonia: Novel Virus, Novel Receptor, Michael Longmire

Dissertations and Theses (Open Access)

Pneumonia is the leading infectious cause of death worldwide and presents a continuing risk among immunocompromised patients. Our work has been focused for many years on the phenomenon of inducible epithelial resistance, where activation of the innate immune response in the airway epithelium is necessary and sufficient to produce a pathogen-killing but self-protective environment to prevent severe disease. Inducible resistance is pathogen-agnostic and has been demonstrated against an array of respiratory infections. We achieve this using a combination of pattern recognition receptor agonists – Pam2CSK4 and ODN M362 being the current formulation – which produce synergistic levels of pathogen reduction …

Development And Functional Characterization Of Carbon Nanodot-Peptide Conjugates For The Treatment Of Bone Disease, Abigail Ali

Honors Theses

Carbon nanodots (CDs) synthesized from carbon nanopowder under acid oxidative conditions have unique bone-bind properties that could be exploited for theranostic purposes. In the zebrafish vertebrate model system, CDs bind to bone with high affinity and specificity, they don’t appear to bind to other tissues and they do not affect the bone physiology or animal viability. Thus, carbon-derived CDs could be developed for the delivery of pharmacological agents to bones to treat diseases such as osteoporosis. Biologicals such as peptides, proteins and antibodies are a new and exciting class of pharmacological agents that have been successfully used in treating complex …

A Cross-Taxa Comparison Of Avian Telomere Dynamics, Age, And Lifespan, Benjamin Konigsberg

Honors Theses

When eukaryotes replicate cells throughout their life, the end regions of chromosomes naturally degrade as a result of the 5' to 3' directionality of DNA polymerase. There is a point when the chromosome is too damaged to provide normal cellular functions, so the cell will die. Telomeres act as a buffer by providing repetitive sequences of non-coding nucleotides. While telomeres do shorten during replication events, the enzyme telomerase can extend telomeres to prevent senescence. Telomere lengths vary between individuals based on different stressor and stress mitigation. Telomeric rate of change is a metric that can capture telomerase activity by measuring …

Quantification Of Blue Carbon Within The Marine Animal Forest On The Rio Grande Valley Artificial Reef, Michelle Kathryn King

Theses and Dissertations

The protection and enhancement of coastal ecosystems provides a number of benefits such as heightened biodiversity, increased fisheries, and enhanced carbon capture (Yeemin et al., 2024). The study of blue carbon ecosystems has expanded rapidly in the last two decades since the term was coined in 2009 (Lovelock & Duarte, 2019). The most well-known blue carbon ecosystems include vegetation-dominated ecosystems such as seagrass meadows, salt marshes, and mangrove forests (Howard et. al., 2014). Prior studies have overlooked Marine Animal Forests (MAF) ability to capture carbon, until recent studies on soft coral (Coppari et al., 2019) and sponge (Rix et al., …

Targeting Bard1 Suppresses A Myc-Dependent Transcriptional Program And Tumor Growth In Pancreatic Ductal Adenocarcinoma, Sohum Patel, Eleanor Jenkins, Rutuj P. Kusurkar, Sherry Lee, Wei Jiang, Avinoam Nevler, Matthew Mccoy, Michael J. Pishvaian, Rosalie C. Sears, Jonathan R. Brody, Charles J. Yeo, Aditi Jain

Department of Surgery Faculty Papers

Pancreatic ductal adenocarcinoma (PDAC) remains one of the deadliest cancers demanding better and more effective therapies. BARD1 or BRCA1-Associated -Ring Domain-1 plays a pivotal role in homologous recombination repair (HRR). However, its function and the underlying molecular mechanisms in PDAC are still not fully elucidated. Here, we demonstrate that BARD1 is overexpressed in PDAC and its genetic inhibition suppresses c-Myc and disrupts c-Myc dependent transcriptional program. Mechanistically, BARD1 stabilizes c-Myc through ubiquitin-proteasome system by regulating FBXW7. Importantly, targeting BARD1 using either siRNAs or CRISPR/Cas9 deletion blocks PDAC growth in vitro and in vivo, without any signs of toxicity to mice. …

Assessment Of Dose-Dependent Cytotoxicity Of Caffeine On Human Colorectal Adenocarcinoma And Foreskin Fibroblast Cell Lines, Sanjay Srinivasan

Theses/Capstones/Creative Projects

Caffeine is a stimulant well-known for its alertness enhancement and energy functions. Beyond its neurological effects, caffeine also influences cellular qualities, including viability and membrane integrity. This study aimed to investigate the cytotoxic effects of caffeine on two distinct human cell lines: Human Colorectal Adenocarcinoma (HT-29) and Foreskin Fibroblasts (HFF). Cells were exposed to varying concentrations of caffeine to evaluate whether its effects were dose dependent. Cell viability was assessed using the Trypan Blue exclusion and Alamar Blue assays. Results showed that HFF cell death was more evident than the HT-29 Cells, displaying a potential therapeutic for cancer treatment.

Pastoral Land Condition: Kimberley Land Condition Standards, Robert Sudmeyer, Rick Fletcher, Kathryn Ryan, Matthew Fletcher, Charles Martin, Philip Thomas, Karen Holmes, Karyn Reeves, Wayne Fletcher

Natural resources published reports

This report outlines the conceptual basis and quantitative land condition standards that define acceptable pastoral land condition for the Kimberley, Western Australia (WA), to meet the regulatory requirements of the Land Administration Act 1997 and the Soil and Land Conservation Act 1945.

The Department of Primary Industries and Regional Development (DPIRD) develops regional-level pastoral land condition standards for WA to implement the Framework for sustainable pastoral management – Revised edition, which is designed to address the Office of the Auditor General’s recommendations to improve the management of pastoral lands in WA. The application of these standards is expected to …

The Effects Of Climate Change On The Spread Of Mosquito-Borne Diseases, Lauren Provoncha, Sarah Franta, Portia Lawrence

Celebrating Scholarship and Creativity Day (2018-)

This paper examines the impact of climate change on the spread of mosquito-borne diseases, focusing on how rising temperatures, altered precipitation patterns, and extreme weather events influence mosquito habitats and disease transmission. It explores the ecological and public health implications of these shifts and highlights the importance of understanding climate-disease dynamics to inform effective prevention and intervention strategies.

Ecological Consequences Of Variable Glacial Melting On Arctic Biodiversity: Trophic Shifts And Community Dynamics, Aislyn Malone, Audrey Swart

Celebrating Scholarship and Creativity Day (2018-)

Our project investigated the profound impacts of increasing glacial melting on various trophic levels, habitats, and other ecological processes.

An Empirical Study On The Economic And Policy Drivers Of Livestock Risk Protection Utilization, Milan Chauhan

Department of Agricultural Economics: Dissertations, Theses, and Student Research

Federally supported risk management programs for livestock producers have existed for the last twenty years. Among these, Livestock Risk Protection (LRP) is a federally subsidized insurance tool available for cattle producers to manage downside price risk. In recent years, participation in LRP has surged. This paper examines the key economic and policy variables that partially drive LRP utilization and analyzes the role of risk management educational efforts in the decision to participate and the intensity of the insurance utilization using unique state-level panel data from 2003 through 2023.

The study analyzes three complementary metrics of insurance utilization: market volume (policies …

Walleye And Sauger Movement And Entrainment In Lewis And Clark Lake, William Joseph Radigan

Dissertations and Doctoral Documents, University of Nebraska-Lincoln, 2023–

Walleye Sander vitreus and Sauger Sander canadensis are both socioeconomically important sportfish species in Lewis and Clark Lake, an interjurisdictionally managed mainstem Missouri River reservoir fishery. Since 2011, adult catch per unit effort (CPUE) of both Walleye and Sauger has remained at approximately 50% of pre-2011 levels. A presumed reason for the suppressed CPUE of adult Walleye and Sauger is substantial entrainment of larval and adult fish resulting from the reservoir’s high turnover rate (7.2 d). Acoustic telemetry was used to quantify adult movement and entrainment and ichthyoplankton trawls were used to assess larval entrainment. Relative importance of factors driving …

Illustrating Insects: Using Art To Encourage Experiences In Entomology, Nia Kaufmann

Honors Program: Senior Projects (Public)

The goal of this creative project is to use art to highlight the diversity of our insect neighbors and encourage others to explore their local environments. In order to accomplish this, I created a poster-sized illustration of five insects I’ve encountered on the University of Nebraska-Lincoln’s City Campus. All insects are posted within the silhouette of Memorial Stadium, each with an ecological and personal significance. The contrast of a well-known building with less popular insects invokes the audience to reconsider how much attention they pay to the wilderness around them.

Keywords: Entomology, Natural Biodiversity, Illustration, Insects, Appreciation of Nature

A Case Study On Readiness Of Engineers In Agricultural Technology Start-Ups, Katie Marie Mowat

Dissertations and Doctoral Documents, University of Nebraska-Lincoln, 2023–

This dissertation explores the perceptions of practicing engineers regarding the skills necessary to be workforce-ready at agricultural technology (ag-tech) start-ups in the Midwestern United States. A qualitative case study methodology is leveraged, combining both interview and job description data. Given their uniqueness, the study divides the ag-tech start-up industry into two subcases: livestock and cropping systems. The Work Readiness Integrated Competence Model (WRICM) is used as the theoretical framework for this study and informs the conceptual framework and analysis processes. The study identified skills that fit into thirteen distinct categories, which are further grouped into four overarching resource groups. Skills …

Gene Editing Approaches To Improving Grain Amino Acid Profiles In Maize And Sorghum, Joseph Preston Hurst

Dissertations and Doctoral Documents, University of Nebraska-Lincoln, 2023–

Maize grain is deficient in lysine. While the opaque2 mutation increases grain lysine, o2 is a transcription factor that regulates a wide network of genes beyond zeins, which leads to pleiotropic and often negative effects. Additionally, the drastic reduction in 19kDa and 22kDa alpha-zeins causes a floury kernel, unsuitable for agricultural use. Sorghum, closely related to maize, has a similar lack of lysine that can be corrected with prolamin alteration and also subject to the same deleterious kernel texture. CRISPR/cas9 gives researchers the ability to directly target genes of interest. In this research, gene editing was used to specifically target …