Digital Commons Network^™

Adipocyte-Derived Cchamide-1, Eiger, Growth-Blocking Peptide 3, And Unpaired 2 Regulate Drosophila Melanogaster Oogenesis, Chad Simmons, Isaiah H. Williams, Tancia W. Bradshaw, Alissa R. Armstrong

Faculty Publications

In addition to energy storage, adipose tissue communication to other organs plays a key role in regulating organismal physiology. While the link between adipose tissue dysfunction and pathophysiology, including diabetes, chronic inflammation, and infertility, is clear, the molecular mechanisms that underlie these associations have not been fully described. We use Drosophila melanogaster as a model to better understand how adipose tissue communicates to the ovary. In this study, we utilized D. melanogaster’s robust genetic toolkit to examine the role of five adipokines known to control larval growth during development, CCHamide-1, CCHamide-2, eiger, Growth-blocking peptide 3, and unpaired 2 in regulating …

Growing South Dakota (Spring 2025), College Of Agriculture, Food And Environmental Sciences

Growing South Dakota (Publication of the College of Agriculture, Food and Environmental Sciences)

[Page] 2 Keeping South Dakota's food supply safe
[Page] 6 Controlling environmental listeria
[Page] 8 Inaugural 2+2 vet program class graduates
[Page] 10 Faculty honored for excellence
[Page] 12 New leader for agronomy, horticulture, plant science
[Page] 14 Students spend spring break in South Africa
[Page] 16 Hadacek offers advice to fellow graduates
[Page] 17 Park Interpretation and Management Club starts
[Page] 18 On the front lines with invasive species
[Page] 22 Director Karla Trautman retires
[Page] 24 Helping navigate precision ag
[Page] 26 Growing bigger, better beef
[Page] 28 Jackrabbits Then and Now

Ccr7 Regulated Mechanisms That Limit The Adaptive Immune Response, Jaisel Amilcar Cervantes

Open Access Theses & Dissertations

C-C chemokine receptor 7 (CCR7) is critical in guiding T cell migration within the thymus and peripheral lymphoid tissues, shaping the adaptive immune response by promoting central tolerance and regulating immune homeostasis. Although its role in lymphocyte trafficking is well established, the molecular mechanisms by which CCR7 influences thymocyte development and T cell receptor (TCR) repertoire formation remain less understood. This study examines how CCR7 deficiency impacts thymic selection, TCR diversity, and the signaling events that shape repertoire restriction. Using a homozygously deleted CCR7 murine model, we found that the absence of CCR7 results in a less restricted TCR repertoire …

Perceptions Of Internship Experiences For Environmental Science Undergraduates, Sydney Brock

Senior Theses

Internships are widely recognized as valuable components of undergraduate education, yet their accessibility, impact, and role in shaping student development vary significantly across disciplines and individual experiences. This thesis investigates the undergraduate internship experience within the School of the Earth, Ocean, and Environment (SEOE) at the University of South Carolina, drawing on survey data and reflective responses from students who participated in internships between 2022 and 2024. The study explores the professional, academic, and personal benefits of internships, with particular attention to how these experiences influence students' career direction, confidence, and skill development. Findings indicate that regardless of format, duration, …

Raising Red Flags: Exploring Phenotypic Change In Tiger Moths (Apantesis) Of Coastal Sc Over 50 Years' Time, Allison K. Fletcher

Senior Theses

Organismal phenotypes play a critical role in ecological interactions and individual fitness, and they may undergo rapid shifts through evolutionary adaptation or phenotypic plasticity in response to climate change and environmental disturbances. As morphological traits such as body size, melanization, and aposematic coloration are especially significant for thermoregulation and predator deterrence, it is important to understand the ways in which these traits may be changing on a regional level. Here, I examined the change in phenotype in populations of three tiger moth (Apantesis) species from a single site in coastal South Carolina over a fifty-year period, testing for differences in …

Differential Gene Coexpression In 16p11.2 Autism Spectrum Disorder, Joseph Patacsil

Senior Theses

Autism spectrum disorder (ASD) is a neurodevelopmental disorder that has been associated with several genetic factors. One of these factors is a mutation of the 16p11.2 region on chromosome 16, in which both deletions and duplications have been strongly associated with ASD. KCTD13 is a gene in the 16p11.2 gene locus that has recently been shown to influence brain development and is also associated with ASD. This study analyzes the differential gene expression and gene pathways of these different phenotypes. KCTD13 deletion had a significant up-regulation effect on genes and shares similar pathways to the 16p11.2 duplication mutation. Mutations in …

Nanosilica Supplementation In Tomato Increases Oviposition On Stems And Caterpillar Mortality In The Tomato Pinworm, Kokou R. Fiaboe, Fathiya M. Khamis, Xavier Cheseto, Abdullahi A. Yusuf, Baldwyn Torto

All Peer-Reviewed Publications

Silicon-induced responses play a key role in plant defense against herbivory, though the underlying mechanisms remain underexplored. In this study, we examined how mesoporous silica nanoparticles (MSNs) affect tomato (Solanum lycopersicum) defense against an invasive and highly destructive lepidopteran herbivore, the tomato pinworm (TPW), Phthorimaea absoluta. In tomato plants supplemented with MSN, prior exposure to TPW oviposition shifted subsequent egg-laying from a preference for leaves to an even distribution between stems and leaves. This shift was not observed in nonsilicon-supplemented plants. Prolonged oviposition triggered pigmentation in the basal cells of type I glandular trichomes on the stems of silicon-supplemented plants. …

From Microplastic Impact To Biodegradation Solutions: Investigating Microplastic Pollution, Microbial Responses, And Efficacy Of Synthetic Microbial Consortia In Plastic Degradation, Rener Sahot De Jesus

Dissertations

Plastics, including microplastics, pose significant environmental threats due to their widespread presence and harmful ecological effects. This dissertation present three distinct, yet interconnected studies. First, a study on microplastic contamination in urban recreational parks was conducted in Al Ain, United Arab Emirates. Results showed that low-density microplastics were present in 87% of soil samples, with spectroscopic analysis identifying synthetic polymers such as polyethylene and polypropylene. Additionally, these microplastics were found to negatively affect soil pH and moisture levels, emphasizing the need for enhanced monitoring and management strategies. Second, the effects of ground microplastics on Photobacterium leiognathi strains, a marine luminous …

Expanding The Lexa Bacterial Two-Hybrid System For Human Protein-Protein Interaction Screening: Application To Tumor Suppressor Par-4, Rebecca M. Richardson

Chemistry & Biochemistry Theses & Dissertations

Protein-protein interactions (PPI) are fundamental to cellular function, influencing processes such as signaling, structural organization, and disease progression. Disruptions in PPIs are implicated in cancer and neurodegenerative diseases, highlighting their importance as therapeutic targets. However, traditional methods for studying human PPIs, such as yeast two-hybrid and co-immunoprecipitation mass spectrometry, are costly and technically demanding. This dissertation explores the LexA-based bacterial two-hybrid (LexA-B2H) system as a cost effective and accessible alternative for investigating human PPIs.

This study focuses on the interaction between glucose-regulated protein 78 (GRP78) and cleaved prostate apoptosis response-4 (cl-Par-4), a tumor suppressor protein involved in apoptosis and neurodegenerative …

Defining A 'Cells To Society' Research Framework For Appendiceal Tumours, Andreana N Holowatyj, Michael J Overman, Konstantinos I Votanopoulos, Andrew M Lowy, Patrick Wagner, Mary K Washington, Cathy Eng, Wai Chin Foo, Richard M Goldberg, Mojgan Hosseini, Kamran Idrees, Douglas B Johnson, Ardaman Shergill, Erin Ward, Nicholas C Zachos, Deborah Shelton

Faculty, Staff and Student Publications

Tumours of the appendix — a vestigial digestive organ attached to the colon — are rare. Although we estimate that around 3,000 new appendiceal cancer cases are diagnosed annually in the USA, the challenges of accurately diagnosing and identifying this tumour type suggest that this number may underestimate true population incidence. In the current absence of disease-specific screening and diagnostic imaging modalities, or well-established risk factors, the incidental discovery of appendix tumours is often prompted by acute presentations mimicking appendicitis or when the tumour has already spread into the abdominal cavity — wherein the potential misclassification of appendiceal tumours as …

Building Online Digital Resources For Project-Based Learning Assignments, Roisin Burke, Ronan Donnelly

Case studies: Digital Education

TU Dublin’s School of Culinary Arts and Food Technology is a partner of the EU+ Tradinnovations project. which focuses on the study of recipes using project-based learning in an interdisciplinary environment. As part of the Tradinnovations project students and staff from EU partners in the disciplines of Food science, Nutrition, Food Engineering and the Social Sciences and Humanities work on project-based learning topics which aim to support innovation within the local food heritage of each country and adapt these recipes to specific vulnerable populations needs (malnutrition among elderly and Alzheimer population, challenges in obesity among young people, dietary needs of …

Genetic And Soil Influences On The Grapevine Rhizosphere Microbiome, Lauren M. Quackenbush

Department of Agronomy and Horticulture: Dissertations, Theses, and Student Research

In vineyard cropping systems, the rhizosphere microbiome arises through recruitment and filtering of the bulk soil microbiome shaped over time by soil carbon and nitrogen, climate, pH and historical legacies of vineyard management. The recruitment and filtering steps occur under the genetic influences of rootstock and scion that together drive variability in rhizosphere microbiome diversity and composition.

This study compares rhizosphere microbiomes of four Pinot Noir blocks under two rootstocks (101-14 and 420A) and four scions (777, 828, Calera, Mt. Eden). Core microbiomes were consistent across all replicates. The most abundant bacterial phyla were Actinobacteriota, Proteobacteria, and Acidobacteriota …

Next-Generation Biomedical Implants And Stimuli Responsive Soft Optical Arrays Via Surface Functionalized Elastomeric Materials, John M. Kapitan

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

The demands of emerging technologies, such as soft robotics, stretchable electronics, and next generation biomedical implants, has led to the development of diverse polymeric and hybrid organic/inorganic materials specifically tuned to meet these challenges. These materials typically have low Young’s moduli and are inert with high chemical stability. However, this has led to materials that are static in nature, lacking any meaningful way of responding to changes in their environment and adapting to these changes. This has driven a shift towards the design, manufacturing, and characterization of various stimuli responsive surfaces, relying on precise control of surface chemical coatings and …

Alfred Russel Wallace Notes 36. Wallace, Evolution And Providence., Charles H. Smith

Faculty/Staff Personal Papers

One of Alfred Russel Wallace’s most important contributions to thought was his identification of the key role provident behavior assumes in human evolution. In this essay I set out the way this idea influenced his thought process after 1864, and especially how it affected his appreciation of the possible role of spiritualism in evolution.

Cytotoxic And Regulatory T Cell Interactions Calculated From Image Mass Cytometry Predict Immunochemotherapy Response In Triple-Negative Breast Cancer, Xiang Wang, Jing Dong, Jian-Rong Li, Yupei Lin, Bikram Sahoo, Yong Li, Yanhong Liu, Robert Taylor Ripley, Jia Wu, Jianjun Zhang, Christopher I Amos, Chao Cheng

Faculty, Staff and Student Publications

No abstract provided.

American College Of Radiology Manual On Mr Safety: 2024 Update And Revisions, Ivan Pedrosa, David A Altman, Jonathan R Dillman, Michael N Hoff, Alexander M Mckinney, Scott B Reeder, Jeffrey M Rogg, R Jason Stafford, James A Webb, Dina L Hernandez, Robert E Watson

Faculty, Staff and Student Publications

Since the introduction of the American College of Radiology (ACR) MRI safety guidelines in 2002, the indications for use of MRI in clinical care and research have continued to expand. Similarly, MRI technologies have evolved, with multiple field strengths now available for human imaging. While several publications have updated the ACR recommendations since the first guidelines, a single source in a structured format was lacking. Accordingly, the ACR Committee on MR Safety recently updated the online ACR Manual on MR Safety that compiles ACR recommendations for safe use of MRI equipment in humans into a single document. This review describes …

Guidelines For The Management Of Pancreatic Cystic Lesions: Many Options, Too Few Solutions?, Yifan Wang, Michael P Kim

Faculty, Staff and Student Publications

No abstract provided.

Revisions To The Safety Assurance Factors For Electronic Health Record Resilience (Safer) Guides To Update National Recommendations For Safe Use Of Electronic Health Records, Dean F Sittig, Trisha Flanagan, Patricia Sengstack, Rosann T Cholankeril, Sara Ehsan, Amanda Heidemann, Daniel R Murphy, Hojjat Salmasian, Jason S Adelman, Hardeep Singh

Faculty, Staff and Student Publications

The Safety Assurance Factors for Electronic Health Record (EHR) Resilience (SAFER) Guides provide recommendations to healthcare organizations for conducting proactive self-assessments of the safety and effectiveness of their EHR implementation and use. Originally released in 2014, they were last updated in 2016. In 2022, the Centers for Medicare and Medicaid Services required their annual attestation by US hospitals.

Objectives: This case study describes how SAFER Guide recommendations were updated to align with current evidence and clinical practice.

Materials and methods: Over nine months, a multidisciplinary team updated SAFER Guides through literature reviews, iterative feedback, and online meetings.

Results: We reduced …

Three Reference Genomes For Freshwater Diatom Ecology And Evolution, Wade R. Roberts, Andrew J. Alverson

Biological Sciences Faculty Publications and Presentations

Diatoms are an important component of marine and freshwater ecosystems. Although the majority of described diatom species live in freshwater systems, genome sequencing efforts have focused primarily on marine species. Genomic resources for freshwater species have the potential to improve our understanding of diatom ecology and evolution, particularly in the context of major environmental shifts. We used long- and short-read sequencing platforms to assemble reference genomes for three freshwater diatom species, all in the order Thalalassiosirales, which are abundant in the plankton of oceans, lakes, reservoirs, and rivers worldwide. We targeted three species that cover the breadth of phylogenetic diversity …

Small-Molecule Mitotic Inhibitors As Anticancer Agents: Discovery, Classification, Mechanisms Of Action, And Clinical Trials, Yazmin Salinas, Subhash Chauhan, Debasish Bandyopadhyay

School of Medicine Publications

Despite decades of research, cancer continues to be a disease of great concern to millions of people around the world. It has been responsible for a total of 609,820 deaths in the U.S. alone in 2023. Over the years, many drugs have been developed to remove or reduce the disease’s impact, all with varying mechanisms of action and side effects. One class of these drugs is small-molecule mitotic inhibitors. These drugs inhibit cancer cell mitosis or self-replication, impeding cell proliferation and eventually leading to cell death. In this paper, small-molecule mitotic inhibitors are discussed and classified through their discovery, underlying …

Brain-Targeted Reactive Oxygen Species In Hypertension: Unveiling Subcellular Dynamics, Immune Cross-Talk, And Novel Therapeutic Pathways, Renjun Wang, Min Wang, Dongshu Du, Zhiying Shan, Lanrong Bi, Qing-Hui Chen

Michigan Tech Publications

Hypertension (HTN) is a complex disease with significant global health implications, driven by neural and oxidative mechanisms. Reactive oxygen species (ROS), once considered mere metabolic byproducts, are now recognized as one of the key contributors to dysfunction of the autonomic nerve system, which involves the onset and progression of HTN. This review highlights the dynamic roles of ROS in neuronal signaling, subcellular compartmentalization, and brain-immune interactions, focusing on their impacts on synaptic remodeling, neuroinflammation, and epigenetic modifications within key autonomic regions such as the paraventricular nucleus and rostral ventrolateral medulla. We discuss novel ROS sources, including microglia-derived and endoplasmic reticulum …

Defining A Management Structure For University Space Analog Research Programs, Scott Van Hoy, Kristen Miller

Journal of Human Performance in Extreme Environments

To learn how humans can safely and effectively live on the surface of the moon or Mars, missions are conducted on Earth that simulate operations on the surface of other planetary bodies. These missions, called space analog missions, require substantial mission planning and organizational management to ensure safe and effective research and operations. The American Public University System’s Analog Research Group developed and tested management structures and philosophies that enable scalable, replicable, and safe analog missions. This fully online research endeavor’s management and internal organization offers a model that academic institutions and private industry can implement to contribute to space …

Prey Size Mediates Interference Competition And Predation Dynamics In A Large Carnivore Community, Jack W. Rabe, Wesley J. Binder, Colby B. Anton, Connor J. Meyer, Matthew C. Metz, Brian J. Smith, Toni K. Ruth, Kerry M. Murphy, Joseph K. Bump, Douglas W. Smith, Daniel R. Stahler

Wildland Resources Faculty Publications

Direct competition for resources is especially fierce among predators, leading to disproportionately strong effects on fitness and functional roles. These competitive effects are exacerbated in complex predator guilds with dominance hierarchies that have clear winners and losers. The direct costs of losing these competitions are well understood, but the drivers of such interactions, and their indirect effects on prey, are not. We evaluate the drivers of interference competition for cougars, and how such competition affects cougar-prey dynamics, by leveraging 23 years of cougar predation data from Yellowstone National Park, USA. We show that the effect of prey size is context-dependent, …

Cigarette Smoke Induces Angiogenic Activation In The Cancer Field Through Dysregulation Of An Endothelial Microrna, Asawari Korde, Anuradha Ramaswamy, Seth Anderson, Lei Jin, Jian-Ge Zhang, Buqu Hu, Walter V Velasco, Lixia Diao, Jing Wang, Margaret A Pisani, Maor Sauler, Daniel J Boffa, Jonathan T Puchalski, Xiting Yan, Seyed Javad Moghaddam, Shervin S Takyar

Faculty, Staff and Student Publications

Cigarette smoke (CS) creates a "cancer field" in the lung that promotes malignant transformation. The molecular changes within this field are not fully characterized. We examined the significance of microRNA-1 (miR-1) downregulation as one of these changes. We found that tumor miR-1 levels in three non-small cell lung cancer cohorts show inverse correlations with the smoking burden. Lung MiR-1 levels follow a spatial gradient, have prognostic significance, and correlate inversely with the molecular markers of injury. In CS-exposed lungs, miR-1 is specifically downregulated in the endothelium. Exposure to CS induces angiogenesis by selectively degrading mature miR-1 via a vascular endothelial …

Use Of Biochar And Industrial Hemp For Remediation Of Heavy-Metal-Contaminated Soil: Root Uptake And Translocations For Cd, Pb, And Zn, Sophie Sward, Kristofor R. Brye, David M. Miller, Dietrich V. Thurston

Crop, Soil and Environmental Sciences Faculty Publications and Presentations

Phytoremediation has been reported as a more energy-efficient, and therefore cost-effective, method of environmental restoration compared to traditional remediation methods for heavy-metal-contaminated soils. Biochar has been shown to have variable effects on remediation potential in heavy-metal-contaminated soils. The objective of this study was to evaluate the effects of soil contamination level (i.e., low, medium, and high), industrial hemp (Cannabis sativa L.) cultivar (i.e., ‘Carmagnola’ and ‘Jinma’), biochar rate (i.e., 0, 2, 5, and 10% by volume), and their interactions on root tissue Cd, Pb, and Zn concentrations and uptakes; whole-plant Cd, Pb, and Zn uptakes; and translocation factors after 90 …

Web Application For Simulation Of An Agent-Based Model In Netlogo3d, Chris Davis Perumal, Abraham Nofal, Benedict J. Kolber, Rachael Miller Neilan

Spora: A Journal of Biomathematics

Agent-based models (ABMs) are computer simulation models for studying systems of autonomous agents. Modelers often use specialized software like NetLogo to develop ABMs, but this software poses barriers to researchers in other disciplines with no prior programming experience. To address this issue, we developed a web application that allows users to simulate our ABM via a web browser, eliminating the need for the user to download and use specialized software. While presented in the context of a specific ABM, our approach can be applied to other ABMs to enhance accessibility. The ABM presented here was developed in NetLogo3D. The model …

A Deep Dive Into The Orchard Of Health: Exploring The Anti-Cancer And Anti-Aging Potential Of Apple Polyphenols, Li-Ching Chen, Han-Sheng Chang, Yuan-Soon Ho

Journal of Food and Drug Analysis

Apples, a ubiquitous and beloved fruit, harbor a treasure trove of bioactive compounds, with apple polyphenols (APs) taking center stage. This review delves into the latest scientific advancements illuminating the anti-cancer and anti-aging properties of APs. We dissect the intricate mechanisms by which APs combat cancer initiation, progression, and metastasis, highlighting their prowess in inducing apoptosis, inhibiting angiogenesis, and modulating cell signaling pathways. Furthermore, we explore the multifaceted ways APs combat aging, including their potent antioxidant and anti-inflammatory actions, DNA protective effects, and ability to modulate cellular processes like autophagy and metabolism. This comprehensive review underscores the therapeutic promise of …

Improving Wetland Revegetation In The Intermountain West: Wetland Manager And Native Plant Vendor Insights And Challenges, Annie L. Henry, Rae Robinson, Kate Sinnott, Mark W. Brunson, Emily E. Tarsa, Adrienne Ernst, Karin M. Kettenring

All Current Publications

Diverse native vegetation supports the many ecosystem services that wetlands provide to society. In degraded wetlands, the native vegetation often needs to be reseeded or replanted as part of the restoration process. However, such wetland revegetation practices of managers are relatively undocumented and the availability of native plants for wetland restoration from vendors has been unclear. We conducted surveys of wetland managers and wetland native plant vendors in the Intermountain West in 2023 to understand their practices, challenges, and perspectives. We found that wetland managers in the Intermountain West revegetate diverse habitats for important ecosystem services despite very limited budgets …

Barriers And Breakthroughs In The Evolution Of Aggregative Multicellularity, Israt Jahan

Arts & Sciences Graduate Student Theses and Dissertations

The evolution of multicellular organization represents a key innovation in the history of life, yet fundamental questions remain about the evolutionary mechanisms that allowed some lineages to achieve remarkable complexity, while constrained others in their elaboration. The widely accepted single-cell bottleneck model provides a compelling explanation for the success of clonal multicellularity by reducing internal conflict and facilitating developmental integration. However, this perspective does not fully account for the stability and repeated evolution of aggregative multicellularity, where cooperation emerges among previously independent cells that may not be genetic relatives. Aggregative multicellularity demonstrates that the evolution of multicellularity is not a …

Barriers And Breakthroughs In The Evolution Of Aggregative Multicellularity, Israt Jahan

Arts & Sciences Graduate Student Theses and Dissertations

The evolution of multicellular organization represents a key innovation in the history of life, yet fundamental questions remain about the evolutionary mechanisms that allowed some lineages to achieve remarkable complexity, while constrained others in their elaboration. The widely accepted single-cell bottleneck model provides a compelling explanation for the success of clonal multicellularity by reducing internal conflict and facilitating developmental integration. However, this perspective does not fully account for the stability and repeated evolution of aggregative multicellularity, where cooperation emerges among previously independent cells that may not be genetic relatives. Aggregative multicellularity demonstrates that the evolution of multicellularity is not a …