Life Sciences Commons^™

Aegic Blogposts - Grain Demand: Health And Environmental Issues, Ross Kingwell, Nicholas Thorsager, Chris Carter

Grain and other field crops published reports

The Australian Export Grains Innovation Centre (AEGIC) was an independent, not-for-profit organisation established in 2012 by the Western Australian Government and the Grains Research and Development Corporation (GRDC). Its core mission was to increase the value and international competitiveness of Australia’s multibillion-dollar export grains industry. AEGIC ceased operation at the end of 2025.

Early in its history between 20 to 30 staff from the former Western Australian Department of Agriculture were seconded to AEGIC. Following the formation of DPIRD, AEGIC continued to receive substantial annual funding support from DPIRD.

This publication is a legacy document containing collated AEGIC blog posts …

Aegic Blogposts - Climate Impacts On Grain Production, Ross Kingwell, Nicholas Thorsager, David Stephens, Ian Foster, Imma Farre

Grain and other field crops published reports

The Australian Export Grains Innovation Centre (AEGIC) was an independent, not-for-profit organisation established in 2012 by the Western Australian Government and the Grains Research and Development Corporation (GRDC). Its core mission was to increase the value and international competitiveness of Australia’s multibillion-dollar export grains industry. AEGIC ceased operation at the end of 2025.

Early in its history between 20 to 30 staff from the former Western Australian Department of Agriculture were seconded to AEGIC. Following the formation of DPIRD, AEGIC continued to receive substantial annual funding support from DPIRD.

This publication is a legacy document containing collated AEGIC blog posts …

Aegic Blogposts - Grain Industry Productivity, Ross Kingwell

Grain and other field crops published reports

The Australian Export Grains Innovation Centre (AEGIC) was an independent, not-for-profit organisation established in 2012 by the Western Australian Government and the Grains Research and Development Corporation (GRDC). Its core mission was to increase the value and international competitiveness of Australia’s multibillion-dollar export grains industry. AEGIC ceased operation at the end of 2025.

Early in its history between 20 to 30 staff from the former Western Australian Department of Agriculture were seconded to AEGIC. Following the formation of DPIRD, AEGIC continued to receive substantial annual funding support from DPIRD.

This publication is a legacy document containing collated AEGIC blog posts …

B.R. Wells Arkansas Rice Research Studies 2025, J. Hardke, X. Sha, N. Bateman

Arkansas Agricultural Experiment Station Research Series

Arkansas is the leading rice producer in the United States. The state represents 45.2% of total U.S. rice production and 45.7% of the total acres planted to rice in 2025. Rice cultural practices vary across the state and across the U.S. However, these practices are also dynamic and continue to evolve in response to changing political, environmental, and economic times. This survey was initiated in 2002 to monitor and record changes in the way Arkansas rice producers approach their livelihood. The survey was conducted by polling county extension agents in each of the counties in Arkansas that produce rice. Questions …

Quaking Aspen On Cedar Mountain, Utah: Status And Update, Jaycee Cappaert, Larissa L. Yocom, Paul C. Rogers, Darren J. Mcavoy, R. Justin Derose

Wildland Resources Student Research

Quaking aspen forests are important communities in the western United States where they provide preferential food and habitat for animals, limit wildfires from spreading, and have favorable aesthetics, among other things. Their putative decline is an issue for ecology and management. We remeasured the aspen population on Cedar Mountain, Utah, to assess changes to its condition since it was originally measured in 2008 and laid the groundwork for continued aspen monitoring on Cedar Mountain. Our objectives were to compare current metrics of stand structure and composition, mortality, crown dieback, bole damage, regeneration, and recruitment, to those of the original inventory. …

Summaries Of Arkansas Cotton Research 2025, Fred M. Bourland

Arkansas Agricultural Experiment Station Research Series

Planted cotton acreage in Arkansas decreased in 2025 to 520,000 acres compared to 650,000 planted acres in 2024. Arkansas producers harvested 515,000 acres, which was a decrease of 125,000 acres from the 640,000 acres harvested in 2024 (https://www.nass.usda.gov/Quick_Stats/Ag_Overview/stateOverview.php?state=Arkansas&year=2025). The 515,000 harvested acres ranked Arkansas third nationally, trailing only Texas and Georgia in harvested acres (https://esmis.nal.usda.gov/sites/default/release-files/795725/cropan26.pdf). The average cotton yield, as reported by the USDA, was 1,239 lb lint/ac, which ranked fourth nationally, behind California, Louisiana, and Arizona. Arkansas farmers produced an estimated 1.329 million bales, which is a decrease from 1.788 million bales produced in 2024. This production still ranks …

Agent-Based Modeling Of Cellular Dynamics In Adoptive Cell Therapies, Yujia Wang

Dissertations and Theses (Open Access)

Adoptive cell therapies (ACT) have shown promising progress in combating cancer, but clinical responses remain heterogeneous. Key determinants, including the functional states of infused cells, tumor–immune interactions, and dosing strategies, are difficult to resolve experimentally in the dynamic and heterogeneous tumor microenvironment, limiting optimization of ACT products and treatment regimens. To address the gap, we developed ABMACT (Agent-Based Model for Adoptive Cell Therapies), a computational framework that reconstruct key cellular functions, interactions, and molecular signatures to recapitulate cell population dynamics associated with differential treatment responses. ABMACT encodes autonomous “virtual cells” using literature-informed rules calibrated with experimental data, enabling simulation of …

Transcriptional Regulation In The Uterine Luminal Epithelium, Evelyn A. Carrion

Dissertations and Theses (Open Access)

Transcriptional Regulation in the Uterine Luminal Epithelium

Evelyn A. Carrion

Advisor: Richard R. Behringer, PhD

Abstract

The uterus is an organ comprised of multiple tissues that are essential for women’s health and reproduction. The uterus is composed of multiple tissue layers, including the perimetrium, myometrium, and the endometrium. The endometrium is the inner lining of the uterus, and contains the luminal epithelium, glandular epithelium, and stroma. The luminal epithelium is a simple columnar layer of cells that is necessary for embryo implantation. The uterus is derived in part from the embryonic precursor tissue called the Müllerian duct. There are no …

Defining The Role Of Spxa1 And Spxa2 In Group A Streptococcus (Gas), Gretchen Anne Morrison

Dissertations and Theses (Open Access)

Group A Streptococcus (GAS) is a human-restricted pathogen whose global incidence has surged in the post-COVID era. The ability of GAS to shift from a colonizing to invasive phenotype depends on coordinated virulence gene regulation in response to host-imposed stressors. The paralogous global transcriptional regulators, SpxA1 and SpxA2, have emerged as central mediators of these adaptive responses; however, the mechanisms by which these regulators influence both global gene regulation in direct response to external stresses and the host response as a result of regulatory changes remain incompletely understood. Using an integrated multi-omic approach, we define the distinct yet interconnected regulatory …

Regulation Of Müllerian Duct Mesenchyme Transcription During Mammalian Sex Differentiation, Haowen Li, Richard R Behringer, Rachel D Mullen

Dissertations and Theses (Open Access)

Sp7/Osterix (Osx) encodes a zinc-finger transcription factor of the Specificity-protein family discovered by Nakashima et al. at the MD Anderson Cancer Center. While primarily recognized for its role in osteogenesis, Osx has also been implicated in mammalian reproductive development, particularly in male sex differentiation, where Müllerian Duct (MD) regression occurs, mediated by anti-Müllerian hormone (AMH) signaling. AMH-induced regression signals are transduced by the mesenchymal tissue surrounding the ductal structure, known as the Müllerian Duct mesenchyme (MDM). It was discovered that AMH signaling is necessary and sufficient for driving Osx expression in MDM. A previous transgenic mouse reporter …

Oxidative Stress Mediated Glutamate Release And Nmda Receptor-Dependent Synaptic Remodeling In Radiation-Induced Cognitive Dysfunction, Thanh Lam

Dissertations and Theses (Open Access)

In children younger than 14 years old, the brain and other parts of the central nervous system are the most common sites for solid tumors. Radiotherapy is an effective treatment for central nervous system (CNS) tumors. However, it often causes a progressive decline in cognitive functions, which is especially devastating for pediatric patients. Although post-mitotic neurons are generally considered resistant to radiation-induced immediate cell death, ionizing radiation causes complex neurochemical and structural changes that damage synaptic integrity. In this study, we examined the molecular cascades following a 10 Gy radiation dose applied to mouse cortical neurons. We found that radiation-induced …

Mutational Analysis Of Domain Functions In The Yeast Decapping Enzyme Dcp2, Jellisa Ewan, Ambro Van Hoof

Dissertations and Theses (Open Access)

In yeast, the major mRNA decay pathway involves deadenylation of the 3’ poly-A tail, followed by decapping of the 5’ m7Gppp cap and subsequent 5’ to 3’ degradation or 3’ to 5’ degradation. This is carried out by Pan2/Pan3 and Ccr4/Not deadenylases, the decapping enzyme Dcp2, and Xrn1 and  RNA exosome exoribonucleases, respectively. The eukaryotic mRNA decapping enzyme complex, Dcp1/Dcp2, is essential in yeast, and deletion of either gene is lethal. However, the deadenylases that act upstream and the 5’ exoribonuclease that act downstream of the decapping step are not, even though they are all highly conserved with no known …

From Geometry To Recognition: A Quantitative Framework For Tcr-Pmhc Structural Analysis In The Age Of Predicted Structures, Kun Hee Kim

Dissertations and Theses (Open Access)

Recognition of antigen by a T cell begins with a single physical event, the engagement of the T cell receptor (TCR) with a peptide-major histocompatibility complex (pMHC), and this interaction is encoded in the geometry with which the receptor docks onto the composite pMHC surface. Whether that docking geometry is biologically organized, and whether the structures now produced at scale by prediction preserve recognition or only reproduce that organization, are the two questions this thesis addresses. Two gaps stand in the way. The first is a gap of measurement, because docking geometry has never been made quantitatively comparable across many …

Antigen Discovery In Multiple Myeloma Using Integrated Long-Read Transcriptomics And Immunopeptidomics, Aya Albittar

Dissertations and Theses (Open Access)

Multiple myeloma (MM) remains an incurable plasma cell malignancy, with relapse driven by persistent chemotherapy-resistant cells and residual disease following treatment. Although immunotherapies have transformed MM care, their success depends on identifying tumor-specific antigens that can be safely targeted. While aberrant genomic structural variation and transcriptional dysregulation are increasingly recognized as sources of novel antigens in MM, the HLA-presented antigenic landscape of MM remains incompletely characterized, particularly for non-canonical, structurally-derived peptides, and long-read transcriptome-informed immunopeptidomic data specific to MM remain scarce.

We established an integrated antigen discovery platform combining long-read RNA sequencing (Iso-Seq) with mass spectrometry-based HLA immunoprecipitation and immunopeptidomics …

Evaluating The Relationship Between Naltrexone Systemic Exposure And Acute Brain Response Using A Neuroimaging-Based Pharmacodynamic Biomarker, Trisha Rastogi, Stephani Stancil, Susan M. Abdel-Rahman, Michael Bartkoski, James Bartolotti, Mariah E. Brewe, William Brooks, Morgan Brucks, Anna Burns, Ann M. Davis, Laura Martin, Jeffrey R. Strawn, John Tumberger, Michaela Voss, Hung-Wen Yeh

Posters

No abstract provided.

Behavioral And Landscape Factors Affecting The Effectiveness Of Egg-Bait Management For Common Ravens In The Great Basin, Usa, Sierra L. Pederson

All Graduate Theses and Dissertations, Fall 2023 to Present

Common Ravens have become increasingly common across the Great Basin of the western USA, largely because human activities, such as roads, agriculture, livestock operations, and human-made structures, provide them with abundant food, water, and nesting sites. As raven numbers have grown, so has their impact on vulnerable species like the greater sage-grouse. Like many other ground-nesting species, greater sage-grouse eggs and chicks are especially susceptible to predation. To help reduce raven numbers in sensitive areas, wildlife managers often place hard-boiled chicken eggs treated with a toxin (DRC-1339) on the landscape, expecting that ravens will die after eating these eggs and …

Bees In The Trap: Leveraging Bumble Bee (Hymenoptera: Apidae: Bombus) Bycatch For Ecological And Genetic Insights, Tori L. Strausser

All Graduate Theses and Dissertations, Fall 2023 to Present

Managers rely on insect monitoring traps to detect insect pests that harm crops and protect food and other agricultural production. However, these traps also capture non-target insects, including bumble bees, raising concerns about whether repeated trapping could harm pollinator populations. This thesis explores whether bees caught as non-targets, also called bycatch, in routine pest monitoring traps can be used to better understand bumble bee populations, and whether traps pose risks to their long-term persistence. Using bumble bees collected from pest surveillance traps placed in crop fields across Utah, this research examined seasonal patterns in body size, timing of capture, and …

Alfred Russel Wallace Notes 42: How Accurate Are The Transcriptions Presented At The Alfred Russel Wallace Page Website?, Charles H. Smith

Faculty/Staff Personal Papers

A look is taken at the level of accuracy displayed by the transcriptions of Wallace writings offered at the Alfred Russel Wallace Page website, as determined by a ChatGPT analysis.

Understanding And Predicting Precipitation Characteristics In The United States Through Machine Learning, Numerical Modeling And Measurements, Cody Luther Ratterman

All Graduate Theses and Dissertations, Fall 2023 to Present

Precipitation is one of the most important yet uncertain variables in the climate system. It varies dramatically in terms of timing, accumulation, rate, and phase, depending on location, season, circulation patterns, and atmospheric conditions. Precipitation forecasts, especially snowfall, are essential to supporting drought mitigation and water management in the Intermountain West. Because rainfall and snowfall lead to opposite effects on snowpack, accurately partitioning rain and snow is important to estimate snowpack levels, winter recreation, mountain ecosystems and runoff. The research findings in this dissertation have advanced the understanding and prediction of precipitation and snowpack in the U.S. by addressing the …

Testing P300-Based Biometric Authentication Paradigms, Jordan Razzak

Electronic Theses and Dissertations

Bench research suggests that P300 amplitude is greater in response to self-relevant stimuli compared to familiar stimuli. This effect could enable a novel method of biometric authentication based on the self-relevant P300. This dissertation aims to: (1) determine the optimal presentation paradigm for leveraging self-relevance in P300-based biometric authentication, and (2) investigate P300 responses from self-relevant stimuli versus stimuli learned over the course of a week.

Two presentation paradigms were compared – rapid serial visual presentation (RSVP) and matrix presentation (MP). Participant-specific RSVP and MP classifiers were trained by applying stepwise linear discriminant analysis to data collected during presentations of …

Melatonin-Functionalized Silver Nanoparticles Enhance Salinity Tolerance In Brassica Juncea By Modulating Antioxidant Defence And Growth Physiology, Mohini Yadav, Manar Fawzi Bani Mfarrej, Vikash Kumar, Ankita Singh, Faheem Ahmad, Saurabh C. Saxena

All Works

Soil salinity is a major abiotic stress that severely limits plant growth and productivity by inducing osmotic stress, oxidative damage, and ionic imbalances. The present study evaluated the potential of melatonin-mediated silver nanoparticles (Mel AgNPs) to enhance salinity stress tolerance in Brassica juncea. Pot experiments were conducted using 21-day-old plants exposed to salinity stress and treated with Mel AgNPs at different concentrations (50 and 100 mg L⁻¹) through both root application and foliar spray. Morphological, physiological, and biochemical responses were assessed 48 h after nanoparticle exposure. Salinity stress markedly increased lipid peroxidation and hydrogen peroxide accumulation while suppressing antioxidant defence. …

Spatial And Hydrologic Effects Of Climate Change And Urbanization On Freshwater Fish Communities In North Georgia Watersheds, Mayuko Mizutani

Master's Theses

Urbanization and climate change are altering streamflow and land cover across the southeastern United States, threatening freshwater biodiversity in rivers already burdened by impoundments and habitat loss. I investigated how changes in streamflow and land cover might affect fish community biodiversity in the Etowah River watershed of North Georgia. By combining a dataset of fish collections from 1999 through 2019 with contemporaneous land use and daily streamflow, I was able to model fish community responses to urbanization and climate-driven hydrologic changes and then forecast fish community structure under multiple CMIP6 global climate models and greenhouse gas emissions scenarios (SSP2-4.5 and …

'Fast' And 'Slow' Water Handling Strategies Explain Pinyon Pine Decline And Juniper Expansion, M. Faraz Rehman

All Graduate Theses and Dissertations, Fall 2023 to Present

Across the western United States, pinyon and juniper woodlands are changing with pinyon pine trees dying back while juniper becoming more abundant. Previous studies suggested that pinyon may lose more water during drier periods. But water loss is only part of the story. Water inputs, or how plants absorb water, are also likely to be important, but rarely well understood. To better understand this, we measured how pinyon and juniper absorb water from different soil depths and how actively they lose water through their leaves. Measurements were made over two years at three sites that ranged from more dry to …

The Evolution Of Hymenopteran Recombination Rates, Timothy John Delory

All Graduate Theses and Dissertations, Fall 2023 to Present

Individuals of some species mix their DNA frequently when producing sex cells, while others do so much less. Hymenopterans (ants bees and wasps) are especially useful for understanding this variation for several reasons. They show large differences in this frequency of shuffling, or rate of recombination, have well-studied genomes, and vary widely in how they live and reproduce. I capitalized on these features examines how recombination rates have evolved in this group at the trait, and gene level.

First, I revisited long-standing ideas about why recombination rates differ among these species, incorporating more than a decade of new research. This …

Divergent Belowground Strategies Of Savanna Grasses Under Varying Fire Regimes, Abigail C. Schmidt

All Graduate Theses and Dissertations, Fall 2023 to Present

Savannas are unique ecosystems, where trees and grasses live together across the landscape, not quite forming full forests or open grasslands. The ability for trees and grass to coexist is largely the result of widespread disturbances, such as fire. Fire in savannas is largely thought of in how it maintains plants above ground, however, fire also plays a key role in ecosystem and plant processes belowground. First, fire can change how soil nutrients, namely phosphorus, are cycled. Phosphorus is a key nutrient that plants need to function, and plants acquire phosphorus through their roots. Frequent fire can enhance phosphorus availability, …

Agronomic And Economic Evaluation Of Alternative Forage Crops Under Irrigation Technologies And Deficit Irrigation, Shikha Sharma

All Graduate Theses and Dissertations, Fall 2023 to Present

Water is becoming more limited in the western United States, including Utah, so farmers need forage crops that can produce well while using less irrigation water. This study examined how different forage crops respond to reduced irrigation and different irrigation application methods, and whether some crops can provide better economic returns under limited water conditions.

Field studies were conducted at three Utah locations, Cedar City, Logan, and Vernal, from 2020 to 2024. The alternative forage crops included teff, sorghum-sudangrass (sudex), and forage rye. For economic comparison, conventional forage crops included alfalfa, corn, and three-way small grains. Four to five irrigation …

Advancing Management Strategies For Two Promising Mason Bee Species (Osmia Ribifloris And Osmia Bruneri) For Berry Pollination, Miranda L. Jones

All Graduate Theses and Dissertations, Fall 2023 to Present

Bee management can broadly refer to human manipulation of one or multiple parts of a bee’s lifecycle. Managing honey bees, commonly referred to as beekeeping, is responsible for providing most pollination for global food crops. However, using more than one bee species for crop pollination can have many benefits. Benefits include better crop pollination and insurance in case one bee species underperforms or its population collapses. Some bees within the genus Osmia are already widely managed for crop pollination because their developmental lifecycle allows bee managers to readily deploy pollinating bees in sync with varying crop blooms, and for certain …

Understanding The Impact Of Environmental Change On Shorebird Abundance And Distribution Across The Intermountain West Over The Past 30 Years, Sharon Montecino

All Graduate Theses and Dissertations, Fall 2023 to Present

Shorebirds have declined worldwide over the past century, mainly due to wetland loss and degradation. Wetlands are sites that are temporarily or permanently flooded and provide critical habitat for shorebirds, especially in arid and semi-arid regions such as the Intermountain West. However, climate change and human water use threaten these wetlands, and how these threats may affect shorebirds in this region remains poorly understood. In the early 1990s, shorebird counts at over 160 wetlands across the Intermountain West provided a broad assessment of shorebird populations in the region. These counts remained the only large-scale surveys until 2022, when the Intermountain …

Integrating Space Use And Demography To Support Management Of An Endangered Alpine Ungulate, Danielle J. Berger

All Graduate Theses and Dissertations, Fall 2023 to Present

The places animals choose to live affect the food they find, the dangers they face, and the weather conditions they experience. These experiences influence whether individual animals survive and reproduce, which in turn affects the size and health of animal populations. Although scientists have long believed that animal movements play an important role in population trends, there has been limited real-world evidence showing this connection. Advances in GPS tracking technology now allow researchers to follow animals over long periods and better understand how movement influences survival. Using 20 years of GPS tracking data from the endangered Sierra Nevada bighorn sheep …

Carbon Cycling, Salinization, And Long-Term Water Quality Trends In Rocky Mountain Streams, Allyson J. Marrs

All Graduate Theses and Dissertations, Fall 2023 to Present

Humans have greatly affected streams and rivers worldwide through urbanization, agriculture, and water use. The purpose of my dissertation is to increase our understanding of various human impacts on rivers. In chapter two, I aim to determine whether there are differences in greenhouse gas (GHG) emissions between a natural river and manmade canals. I did this by measuring the emissions and dissolved concentrations of three of the most prevalent GHGs, carbon dioxide (CO₂), methane (CH₄), and nitrous oxide (N₂O). I found that most of the sites I studied were emitting CO₂ and CH …