Life Sciences Commons^™

Fisheries Research Report No. 363 : South-West Freshwater Angling: Estimates Of Participation, Effort And Catch For 2024/25, Claire B. Smallwood, Karina L. Ryan, Eva Lai

Fisheries Research Reports

South-West Freshwater Angling (SWFA) in Western Australia is a licensed fishery primarily targeting the Brown Trout (Salmo trutta) and Rainbow Trout (Oncorhynchus mykiss), which are stocked in selected dams and rivers, as well as the introduced Redfin Perch (Perca fluviatilis) and the native Freshwater Cobbler (Tandanus bostocki). Since 2000/01, annual phone-recall surveys have been undertaken using the SWFA licence database as the sampling frame. This monitoring provides information to understand the fishery and support future management decisions. For the first time, data are reported by basin for different waterbody types (public dams, rivers) as well as for specific key fishing …

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, …

Forage Preference In Two Geographically Co-Occurring Fungus Gardening Ants: A Dietary Dna Approach, Matthew Richards-Perhatch V, Elizabeth Boshers, Matthew Greenwold, Jon N. Seal

Biology Faculty Publications and Presentations

Traditional methods of forage identification are impractical with non-leafcutting fungus gardening ants, making diet-related ecological and life history questions difficult to study. To address this limitation, we utilized dietary DNA metabarcoding on excavated ant fungus gardens to generate forage diversity metrics for the two co-occurring species Trachymyrmex septentrionalis and Mycetomoellerius turrifex. Ten fungus garden samples from each species were collected from a 60x70 m plot in East Texas. Each of the colonies we sampled was paired with a colony from the other species within 3 m of it. Plant forage diversity was assessed with chloroplast trnL primers, and insect frass …

Assessing Crop Rotation Productivity, Soil Health, And Fertility, And Economic Performance, To Enhance Semi-Arid High Plains Cropping Systems Sustainability, Ezequiel Maria Villamil

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

Sustainable crop production in the semi-arid High Plains of Nebraska faces challenges from limited precipitation, high interannual variability, and economic risk. This dissertation investigates the long-term productivity, water use, soil health, and economic sustainability of dryland crop rotations, with emphasis on the role of pulses as alternatives to fallow.

Chapter 1 analyzes nearly three decades (1995–2023) of on-farm data from the High Plains Agricultural Laboratory (Sidney, Nebraska) to compare seven crop rotations, including wheat, corn, millet, sunflower, and field peas. Results showed that wheat–corn–fallow (W–C–F) consistently outperformed traditional wheat–fallow (W–F) and more intensified four-year rotations, providing the highest grain yields, …

Development Of Databases For Glycan Utilization And Anti-Prokaryotic Defense In Microbiomes, Yuchen Yan

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

Microbiomes in humans, animals, plants, and other environments are necessary components of the biosphere for global nutrient cycling and maintaining ecosystem balance. In particular, the gut microbiome plays an essential role in modulating human health through glycan utilization. Carbohydrate-active enzymes (CAZymes), CAZyme gene clusters (CGCs), and polysaccharide utilization loci (PULs) are key genomic features that determine microbial capacities for carbohydrate metabolism. Meanwhile, the arms race between phages and prokaryotes has led to the evolution of various anti-prokaryotic immune systems (APIS) in phages to counteract prokaryotic immune systems (PIS).

As bioinformatics methods used to analyze microbiome information advance rapidly, there is …

The Role Of Peroxisomal Acot4 And Acot8 In Modulating Lipid Metabolism And Stress Pathways In Steatotic Hepatocytes, Sylwia Miekus

Department of Nutrition and Health Sciences: Dissertations, Theses, and Student Research

Metabolic dysfunction-associated steatotic liver disease (MASLD) is characterized by excessive lipid accumulation in hepatocytes and the development of lipotoxic stress that disrupts cellular homeostasis. Peroxisomal lipid metabolism plays an important role in maintaining acyl-CoA balance during fatty acid overload, yet the contribution of peroxisomal acyl-CoA thioesterases to early lipotoxic responses remains insufficiently understood. The aim of this study was to investigate the functional involvement of the peroxisomal enzymes acyl-CoA thioesterase 4 (ACOT4) and acyl-CoA thioesterase 8 (ACOT8) in hepatocyte lipid handling under acute lipotoxic conditions. An in vitro model of steatosis was established in AML12 cells through exposure to a …

Mindreading And Embodiment: Beyond Mirror Neurons., Sanad Al Khatib

College of Arts & Sciences Senior Theses

This paper examines the question: how do we figure out what other people are thinking and why they act as they do, or put differently, how is it that we can read minds in daily life? For decades, the dominant view held that we explain and predict other people’s behavior by attributing to them mental states such as beliefs, desires, and intentions, represented symbolically in the brain. The embodied simulation model challenges this view, proposing that understanding others primarily relies on mirror neurons that activate both when we perform an action and when we observe someone else performing it. This …

Effectiveness Of Education On Increasing Training Likelihood: An Analysis In Relation To Physique Inflation, Reid J. Venable

Honors College Theses

Resistance training is a widely recommended form of exercise for enhancing muscular strength, improving metabolic health, and promoting overall quality of life. In addition to these benefits, perhaps the most popular reason for participating in resistance training is to achieve muscle hypertrophy and attain a desired or aesthetic physique. However, various factors such as the use of performance-enhancing drugs and social media have led to “physique inflation,” a cultural phenomenon in which exposure to highly enhanced or unrealistic body types shifts perceptions of what is considered a “normal” or attainable physique. As a result, many individuals avoid or delay resistance …

Characterizing The Relationship Between Parturition In Beef Cattle And The Lunar Phase And Meteorological Factors., Caroline E. Chambers

Honors College Theses

For beef cattle, parturition is one of the most critical stages in the reproductive process. It is crucial that farmers understand the factors that may influence the timing of parturition. There is a persistent preconception that the onset of parturition is influenced by the lunar phase and weather factors. The objective of this study is to characterize the association between parturition in beef cattle, the lunar phase, and/or different weather factors such as barometric pressure and temperature. Cattle records were obtained from Chambers Family Farm in Cumberland Furnace, TN. Data was collected from 142 calvings from January 2017 to October …

Behavioral And Physiological Insights Into Cross-Stage Interactions In The Desert Locust, Benjamin Fürstenau, Vincent O. Nyasembe, Hosea O. Mokaya, Hillary K. Kirwa, Angel Guerrero, Baldwyn Torto

All Peer-Reviewed Publications

Gregarious desert locusts produce stage-specific pheromones that facilitate cohesive behavior in juveniles and synchronize maturation and mating in sexually mature adults. During locust outbreaks, merging populations result in cross-stage interactions, yet their impact on locust biology remains poorly understood. This study tested the hypothesis that cross-stage interactions influence juvenile cohesion and physiological traits. Using behavioral assays and gas chromatography-mass spectrometry, we examined short- and long-term interactions between juvenile and adult desert locusts. In short-term (24 h) cage assays, the presence of adults did not significantly affect grouping behavior in gregarious 3rd instar nymphs, as measured by the mean distance between …

Root Analysis Of Glechoma Hederacea, Austin Z. Shiner

Theses/Capstones/Creative Projects

Glechoma hederacea, or commonly referred to as ground ivy, is a weed that can be found in many places such as parks, yards, and landscapes. A mutant genotype of Glechoma hederacea that was exhibiting virescence was collected from a single mutant branch of the wildtype ground ivy. The collected mutant has delayed chloroplast development, and this appears to impact plastidial terpenoid synthesis resulting in damage to leaf tissue. Since a range of plant hormones include isoprene units, altered IPP synthesis may have visible impacts beyond the green tissues of the plant, so this study aimed at addressing this question. …

Development Of Novel Small Molecule Therapeutics For Myotonic Dystrophy, Xhesika Azis

Biological Sciences

Myotonic Dystrophy type 1 (DM1) results from expanded CUG repeat RNA that sequesters MBNL proteins and disrupts alternative splicing. Small molecules that bind toxic repeat RNA and release MBNL proteins represent a promising therapeutic strategy. This thesis examines newly synthesized modified polycyclic compounds (MPCs) engineered to target CUG RNA with enhanced specificity and efficacy. Through Suzuki–Miyaura coupling and benzoquinone-mediated cyclization, MPC03 was synthesized and characterized by NMR and LC–MS.

The biological activity of these compounds was assessed in DM1 patient-derived myotubes and fibroblasts. MPC03 consistently produced dose-dependent rescue of multiple MBNL-regulated exons, restoring splicing patterns toward those observed in healthy …

Pfos And Lung Injury: A Review Of Human And Experimental Evidence, Farzana Hakim

Theses and Dissertations

Human epidemiological research has shown the adverse health consequences of long-term accumulation of per- and polyfluoroalkyl substances (PFAS) in human tissue. Specifically, this review will examine the relationship between PFAS exposure, impaired immune system functioning, and an elevated risk of respiratory disease using both human and experimental data. Research on human populations indicates that children exposed to PFAS have lower levels of antibodies to vaccines; those children prenatally exposed to PFAS are more susceptible to upper respiratory infections; and that adult humans have a higher incidence of chronic obstructive pulmonary disease (COPD). Additionally, experimental studies demonstrate that PFOS and PFOA …

Fungal Biodiversity, Microbial Communities, And Ecosystem Function In Non-Perennial Streams, Charles T. Bond

Dissertations

A global majority of steams are non-perennial, drying at some point in time and space. Despite the vital roles that fungi and other microbes play in stream ecosystems, most research on stream microbiomes comes from perennial (continuously flowing) streams. The present series of studies addresses this research gap by examining microbial community composition and function in non-perennial streams, with an emphasis on fungi. Chapter I reviews existing scientific literature on the ecological processes that shape microbiome structure and function in non-perennial streams and outlines the varieties of fungi that may live there. Chapter II uses rDNA metabarcoding to survey fungal …

The Genetic And Environmental Determinants Of Stress Resilience Across Model Systems, Carson Len Stacy

Graduate Theses and Dissertations

Survival in fluctuating environments demands that organisms effectively anticipate and respond to future challenges. This capacity is shaped by both genetic background and environmental context. In this dissertation, I apply a population aware lens to explore how genetic diversity and environmental conditions intersect to shape stress survival. Integrating functional genomics and transcriptomics in Saccharomyces cerevisiae (brewer’s yeast) and a vertebrate (common canary) system, I dissect gene-by-environment (GE) interactions that underpin resilience. First, I move beyond a single reference genome by using a pan-genomic CRISPR knockout screen to assess osmotic stress survival across diverse S. cerevisiae isolates. This analysis reveals a …

Why The Long Face? The Distribution And Niche Of The Imperiled Narrow-Faced Kangaroo Rat (Dipodomys Venustus), Garrett L. Gimbel

Master's Theses

Distribution models provide a practical use case of connecting ecological niche theory with species’ occurrence and assemblages. By explicitly linking Hutchinson’s “niche space” with geographic space researchers can gain valuable information on a species’ niche characteristics and interactions, thereby informing conservation and management practices. The narrow-faced kangaroo rat (Dipodomys venustus) is a highly understudied kangaroo rat species endemic to the central coast of California and is an ideal species to explore niche theory in distribution modeling. Three subspecies are currently recognized: The Santa Cruz kangaroo rat (D. v. venustus), the elephant-eared kangaroo rat (D. v. …

Asymptomatic Cryptococcal Antigenemia: A Multi-Clinic Cross-Sectional Study On The Prevalence, Associated Factors And Predictors Of Three-Month Outcomes Among Antiretroviralnaïve And Antiretroviral-Experienced Hiv Patients In Dar Es Salaam, Tanzania, Mandela Makakala, Mukasa Mohammed, Mabula Mabelele, Kamran Hameed, Philip Adebayo

Internal Medicine, East Africa

Background: Cryptococcal meningitis remains a leading cause of HIV/AIDS-related mortality, predominantly in Sub-Saharan Africa. Current screening and prevention efforts primarily target antiretroviral therapy (ART)-naïve patients, whereas strategies for ART-experienced individuals are less well defined.

Objectives: This study primarily aimed at determining the prevalence of asymptomatic cryptococcal antigenemia (ACA) among ART-naïve and ART-experienced patients, along with associated factors and predictors of three-month outcomes among HIV patients in three HIV clinics in Dar es Salaam, Tanzania. Secondarily, factors associated with serum cryptococcal antigen positivity in the overall study population were also assessed.

Methods: This cross-sectional clinic-based study recruited 273 HIV-positive participants (ART-naïve …

An Update On Novel Taxa And Revised Taxonomic Status Of Bacteria Isolated From Human Clinical Specimens Described In 2024, Arianna Carella, Karen C. Carroll, Erik Munson

Clinical Lab Sciences Faculty Research and Publications

Knowledge of novel and revised bacterial taxonomy facilitates routine operations in the medical microbiology laboratory and communication with important stakeholders. Notable new gram-positive taxa accepted in 2024 include the clinically significant Staphylococcus brunensis sp. nov., as well as Streptococcus suis subsp. hashimotonensis subsp. nov., which can be delineated from other Streptococcus suis subsp. by possession of the Lancefield group A antigen. Four novel Enterobacterales species are discussed, plus a novel eighth family Gallaecimonadaceae. One of these, Providencia huashanensis sp. nov. is clinically significant and harbors multiple genetic determinants that encode antimicrobial resistance mechanisms. Stenotrophomonas forensis sp. nov., derived from …

Blood-Based Clinical Markers For Early Dementia Detection: Insights From Ad-Detect-Cohort, Benard Aliwa, Jasmit Shah, Olivera Nesic Taylor,, Samuel Nguku, Juzar Hooker, Dilraj Sokhi, Sylvia Mbugua, Litha Musili, Rachel Maina, Harrison Kaleli, Levi Muyela, Anne Njoki Gitere, Anne Nyambura, Zul Merali, Karen Blackmon, Chinedu Momoh

Brain and Mind Institute

Background: Over 55 million people worldwide live with dementia, with more than60% residing in low- and middle-income countries. Alzheimer’s disease, the mostcommon form of dementia, accounts for 60–70% of cases. Early and accurate diagnosisremains a global challenge, necessitating novel approaches to mitigate the diseaseburden. Biomarkers hold significant promise in improving diagnostic accuracy andpredicting disease progression. Validated biomarkers for the preclinical stages ofdementia are crucial for advancing diagnosis and therapeutic strategies. We aimedto identify potential clinical markers for early dementia detection and assess theirpredictive accuracy in identifying high-risk individuals.

Method: We analyzed blood samples from dementia cases (n = 30) and …

National-Scale Open Cattle Feedlot Detection Using Deep Learning And High-Resolution Aerial Images: Spatial Distribution And Animal Welfare Analysis, Uilson Ricardo Venancio Aires, Vitor Souza Martins, Dakota Hester, Thainara Lima, Lucas Borges Ferreira

Research Data

Open cattle feedlots are a major form of beef production infrastructure in the United States, characterized by outdoor confinement, high animal densities, and regulated feeding practices. Despite their economic importance, a comprehensive and spatially consistent national database of these facilities remains limited. This dataset provides labeled training data, trained deep learning models, and geospatial detection outputs developed to support automated identification of open cattle feedlots from aerial imagery. The dataset includes a manually curated shapefile of 11,746 open cattle feedlot facilities identified through visual interpretation of high-resolution aerial imagery in highly productive counties of Nebraska, Kansas, and Texas. These labels …

Effects Of Injectable Trace Mineral Timing On Calf Performance And Health Indicators, Marie E. Goulais

Graduate Theses and Dissertations

One hundred and fourteen calves (average BW= 224kg ± 89kg) were utilized to evaluate the effects of injectable trace mineral (ITM) administration on calf performance and health when administered pre-weaning and at weaning. Calves were blocked by sex, stratified by age, and randomly assigned to one of the following treatment groups: 1) no ITM injection (CON), 2) ITM administered 28 d before weaning (PW), or 3) ITM administration at weaning (WEAN). Calves were vaccinated against respiratory pathogens on D-28 and D0. At weaning, cattle were transported to a local auction market, held overnight and returned the following morning. Body weight …

Hormonal Control Of Seawater Acclimation In The Intestine Of The Atlantic Killifish (Fundulus Heteroclitus), Karma Je Hine

Graduate Theses and Dissertations

The Atlantic killifish (Fundulus Heteroclitus) is a teleost found in brackish water estuaries, which are subject to large fluctuations in salinity, that handles osmotic stress by triggering compensatory actions across their osmoregulatory organs. As the external salinity increases, the killifish intestine exhibits a high degree of phenotypic plasticity, as the protein composition of the gut epithelium can be modified to absorb desalinated water (H2O) from ingested seawater (SW). Three osmoregulatory hormones, prolactin (P), growth hormone (GH), and cortisol (F), have been observed to be crucial for these transitions to occur in many species of teleosts, including killifish. This research sought …

Reliability Analysis Of In-Person And Virtual Goniometric Measurements For Select Shoulder And Forearm Motions, Autumn Whitson, Tracy Cook, Lisa Middleton, Casey E. Humphrey, Aaron D. Sciascia

EKU Faculty and Staff Scholarship

Background Previous research on upper extremity range of motion has compared in-person to virtual measures for sagittal plane motions (flexion/extension) showing good-excellent reliability. Since upper extremity evaluation includes motion in all planes, it is important to assess whether transverse plane motion (rotation, supination, pronation) can be reliably measured during a virtual assessment. Purpose To evaluate the reliability (test/re-test inter-rater and intra-rater) of goniometric measurements of shoulder internal rotation and forearm pronation/supination obtained in-person and virtually. Study Design Observational cohort, Reliability study Methods Subjects 18-60 years of age with no upper extremity injuries were recruited for range of motion (ROM) testing …

(R2135) System Dynamical Analysis For Ann-Based Numerical Solutions Of A Compartmental Model: A Bio-Mathematical Model Of Drug Diffusion Through The Compartments Of Blood And Tissue, Rakesh Kumar, Sudarshan Dhua

Applications and Applied Mathematics: An International Journal (AAM)

This paper provides a considerably efficient numerical approach to acquire the solutions of a biomathematical model administrating oral and intravenous distribution of pharmaceuticals in the human body. The proposed numerical approach based on an artificial neural network is employed to extract numerical solutions for a detailed set of ordinary differential equations and analyze the change in concentration of drug diffusion via the compartments of blood and tissue medium. We primarily focus on analyzing three different models established on the diffusion process, exercising laws of mass action and Fick’s principle. In this work, the existing model is reformulated as an optimization …

(R2107) Analysis Of A Bivalent Vaccine Model With Peer Influence Effect On Testing, Manoj Kumar Singh, Anjali .

Applications and Applied Mathematics: An International Journal (AAM)

The coronavirus caused havoc around the world. There was a terrible situation in villages and cities, and no one knew how to deal with it. Although the governments of each country tried their best to save the common people, vaccination programs and testing centers were built everywhere. However, people were not utilizing it due to fear. Because of this, the infection spread rapidly. The qualitative study of the mathematical model here is in context with the situation when bivalent vaccination and testing are available for an epidemic. The mathematical model combines the exposed period and influenza model with vaccination included …

Differences In Loading Rate In Shod And Unshod Treadmill Walking, David Austin Kropushek

Master's Theses

The purpose of this study was to compare the loading rates of shod and unshod conditions in treadmill walking. It was hypothesized that walking barefoot would demonstrate higher loading rates than walking with shoes. It was also hypothesized that walking barefoot on a treadmill would result in greater stride-to-stride variability than walking with shoes. Sixteen healthy adult females volunteered and provided their consent to participate in this study. Participants were given time to accommodate to the instrumented treadmill both while wearing shoes and without. Two 10-minute trials were collected with a rest period between. Data were analyzed using Vicon Nexus …

Validation Of Diagnostic Markers And Linkage Mapping In Vitis × Muscadinia Hybrids, Isabella Vaughn

Graduate Theses and Dissertations

The Vitis genus comprises two subgenera, Vitis (2n = 38) and Muscadinia (2n = 40), both cultivated for wine, juice, and fresh-market fruit. Vitis vinifera cultivars produce high-quality fruit but are highly susceptible to diseases endemic to the southeastern United States, while muscadines (Muscadinia rotundifolia) provide exceptional disease resistance, heat tolerance, and environmental adaptability. Hybridizing these subgenera offers a path to combine fruit quality with disease resistance; however, wide Vitis × Muscadinia (V × M) crosses remain difficult due to differences in chromosome number, genetic divergence, and reproductive barriers that reduce fertility and recombination. Recent breeding efforts have introgressed stenospermocarpic …

Seagrass Carbon Standing Stock In The Northern Gulf Of Mexico: The Role Of Seagrass Beds In Mississippi As Potential Blue Carbon Sinks, Devan Hildebrand

Master's Theses

Organic carbon stored in marine ecosystems is known as blue carbon. Seagrass beds have the ability to contribute to global blue carbon standing stocks through the uptake and sequestration of carbon from the water column. Through coastal management and conservation best practices, blue carbon habitats have the potential to help mitigate the effects of climate change. Although widely studied, knowledge gaps exist on the sediment carbon standing stock of seagrasses. I aim to better understand how persistent seagrass meadows surrounding barrier islands in the northcentral Gulf of Mexico contribute to long-term blue carbon standing stocks. Subaqueous sediment cores were collected …

Life History And Distribution Of Two Species Of Cownose Ray, Rhinoptera Bonasus And Rhinoptera Brasiliensis, In Mississippi Coastal Waters, Anna Millender

Master's Theses

Historically, the American Cownose Ray (Rhinoptera bonasus) was considered the only rhinopterid residing in the northern Gulf of Mexico (GOM); however, recent studies have confirmed the presence of the Brazilian Cownose Ray (Rhinoptera brasiliensis) throughout this region. The current study investigated the life history and distribution of both species within Mississippi waters, an area that previously represented a data gap for both species. From April 2016 – July 2025, 193 R. bonasus and 94 R. brasiliensis were analyzed to describe the reproductive biology. Reproductive timing, mating, gestation length, and parturition were similar among species. Although more …

Isolation Of The 2019 Bonnet Carré Spillway Effects On The Habitat Suitability Of Brown Shrimp (Farfantepenaeus Aztecus) And Blue Crab (Callinectes Sapidus) Using A Modeling Approach, Mallory Dyson

Master's Theses

In 2019, an unprecedented flood year, the Bonnet Carré Spillway (BCS) was opened on two separate occasions (February 27^th to April 11^th, and May 10^th through July 27^th) diverting a volume 6 times the volume of Lake Pontchartrain into the surrounding coastal waters of Louisiana, Mississippi, and Alabama. The goal of this research was to determine the spatio-temporal influence of these freshwater releases on two economically and ecologically important species (Farfantepenaeus aztecus and Callinectes sapidus) with variable responses to salinity and temperature depending on the age class. The Habitat Suitability Index (HSI) …