Digital Commons Network^™

Cluster Analysis To Explore Morphological Variation Of Banana (Musa Spp.): A Case Study In Jember And Lumajang, East Java, Indonesia, Halimatus Sa'diyah, Vega Kartika Sari, Riza Yuli Rusdiana, Achmad Chaqiqotul Khofi

Jurnal Kultivasi

Banana (Musa spp.) is an important horticultural plant with a high variety in Indonesia; yet, knowledge on the morphological characteristics of indigenous bananas in East Java remains inadequate. This research aims to identify the variation and classify banana cultivars in East Java based on morphological character. The exploration was conducted using the accidental sampling method. The observations include 15 qualitative and 9 quantitative characters. Descriptive statistics were used to evaluate the data, followed by cluster analysis using the average linkage method and Euclidean distance. The exploration resulted in 15 banana cultivars with varying morphology. The cluster analysis shows banana cultivars …

Seasonal And Sex-Based Variation In Coyote Responses To Social Olfactory Stimuli, Giuliana Carneiro

Student Research Symposium

Coyotes (Canis latrans) are socially complex, often forming strong pair bonds that can persist across multiple breeding seasons³. Scent marking, particularly urine marking, is a key form of communication used to establish territory, convey reproductive status, and maintain social hierarchies¹. This behavior is influenced by factors such as sex and season, and is central to understanding their social dynamics⁴. This preliminary study is part of a broader investigation into coyote behavior, specifically examining how these factors affect responses to olfactory stimuli from familiar and unfamiliar individuals².

In this study, coyote …

Latency To Approach Social Olfactory Stimuli In Female Coyotes: Pairmate Vs Sibling, Jenny Malm, Caroline Long

Student Research Symposium

• Scent marking is a common form of communication among mammals, including coyotes¹.

Qualitative Assessment Of Coyote Olfactory Behavior In Response To Urine Stimuli, Sophie Isom, Caroline Long

Student Research Symposium

• The coyote (Canis latrans) marks territorial boundaries with scent cues.¹

Internship As An In-Vivo Technician At The Institute For Antiviral Research, Ashlynn Clark

Student Research Symposium

The Institute for Antiviral Research (IAR), located at Utah State University, specializes in evaluating antiviral agents and vaccines against a wide array of human pathogenic viruses, such as influenza, enterovirus, West Nile virus, yellow fever, zika virus, polio, and SARS-CoV-2, utilizing in vivo and in vitro models.

A Reliable And Efficient Detection Pipeline For Rodent Ultrasonic Vocalizations, Sabah Shahnoor Anis, Devin Mark Kellis, Kris Ford Kaigler, Marlene A. Wilson, Christian O'Reilly

Faculty Publications

Analyzing ultrasonic vocalizations (USVs) is crucial for understanding rodents' affective states and social behaviors, but the manual analysis is time-consuming and prone to errors. Automated USV detection systems have been developed to address these challenges. Yet, these systems often rely on machine learning and fail to generalize effectively to new datasets. To tackle these shortcomings, we introduce ContourUSV, an efficient automated system for detecting USVs from audio recordings. Our pipeline includes spectrogram generation, cleaning, pre-processing, contour detection, post-processing, and evaluation against manual annotations. To ensure robustness and reliability, we compared ContourUSV with three state-of-the-art systems using an existing open-access USV …

Molecular Subtyping Of Hypertensive Disorders Of Pregnancy, Michal Elovitz, Elaine Gee, Nathaniel Delaney-Busch, Alison Moe, Mitsu Reddy, Arkady Khodursky, Johnny La, Ilma Abbas, Kay Mekaru, Hunter Collins, Farooq Siddiqui, Rory Nolan, Rupsa Boelig, Daniel Kiefer, Pamela Simmons, George Saade, Antonio Saad, Ebony Carter, Thomas Mcelrath, Stephen Quake, Mark Depristo, Carrie Haverty, Manfred Lee, Eugeni Namsaraev, Vincenzo Berghella, Ai-Ris Collier, Antonia Frolova, Esther Park-Hwang, Luis Pacheco, Elizabeth Sutton, Maneesh Jain, Kara Rood, William A Grobman, Joseph Biggio, Cynthia Gyamfi-Bannerman, Arun Jeyabalan, Morten Rasmussen

Department of Obstetrics and Gynecology Faculty Papers

Hypertensive disorders of pregnancy (HDP), including preeclampsia, affect 1 in 6 pregnancies, are major contributors to maternal morbidity and mortality, yet lack precision medicine strategies. Analyzing transcriptomic data from a prospectively-collected diverse cohort (n = 9102), this study reveals distinct RNA subtypes in maternal blood, reclassifying clinical HDP phenotypes like early/late-onset preeclampsia. The placental gene PAPPA2 strongly predicts the most severe forms of preeclampsia in individuals without pre-existing high risk factors, months before symptoms, and its overexpression correlates with earlier delivery in a dose-dependent manner. Further, molecular subtypes characterized by immune genes are upregulated in less severe forms of HDP. …

The Integration Of Seed Activities Into An International Pastures Network, J E. Ferguson, R Schaus, A Peralta

IGC Proceedings (1977-2023)

The International Network for Evaluation of Tropical Pastures, known by its spanish acronym RIEPT, was initiated in 1979 for the evaluation germplasm and pastures, the devel­opment of methodology and professional communication in lowland Tropical America (Toledo 1982). Since then the RIEPT has constantly expanded, both in the number of countries and institutions participating, the number of materi­als under evaluation and the range of evaluation sequences. Initially, the major source of seeds was CIAT. By 1985 as the RIEPT expanded, seed availability became a constraint and national research institutions were challenged to develop their own expertise and supply of seeds (Ferguson …

Ai Beliefs And Practices In Community College Classrooms, Julie Eng, Heather Umphlett, Jocelyn Gilchrist, Alicia Howell, Mary Ann Howell, Wendy Miller-Edwards, Laurel Pope

Inquiry: The Journal of the Virginia Community Colleges

The country, the Commonwealth of Virginia, and Virginia Community College System initiatives all promote generative AI within education. It is a topic of great concern and interest for higher education instructors, yet at the same time many faculty members feel uncertain about effectively integrating it into class material. To further add pressure to the AI explosion, community colleges particularly face a responsibility to prepare their students for success in this new AI-focused environment. In this article, seven faculty members from Camp Community College discuss the implications of generative AI programs, including subscriptions and chatbots, within their particular courses and how …

A Folding-Docking-Affinity Framework For Protein-Ligand Binding Affinity Prediction, Ming-Hsiu Wu, Ziqian Xie, Degui Zhi

Faculty, Staff and Student Publications

Accurate protein-ligand binding affinity prediction is crucial in drug discovery. Existing methods are predominately docking-free, without explicitly considering atom-level interaction between proteins and ligands in scenarios where crystallized protein-ligand binding conformations are unavailable. Now, with breakthroughs in deep learning AI-based protein folding and binding conformation prediction, can we improve binding affinity prediction? This study introduces a framework, Folding-Docking-Affinity (FDA), which folds proteins, determines protein-ligand binding conformations, and predicts binding affinities from three-dimensional protein-ligand binding structures. Our experimental results indicate that FDA performs comparably to state-of-the-art docking-free methods. We anticipate that our proposed framework serves as a starting point for integrating …

Daily Acute Intermittent Hypoxia Elicits Age & Sex-Dependent Changes In Molecules Regulating Phrenic Motor Plasticity, Jayakrishnan Nair, Alexandria Marciante, Carter Lurk, Mia Kelly, Maclain Capron, Gordon Mitchell

Department of Physical Therapy Faculty Papers

Acute intermittent hypoxia (AIH) elicits a form of respiratory motor plasticity known as phrenic long-term facilitation (pLTF). Exposure to repetitive daily AIH (dAIH) enhances pLTF, a form of metaplasticity. Little is known concerning cellular mechanisms giving rise to dAIH-induced metaplasticity and the age-dependent sexual dimorphism of AIH associated pro-plasticity mRNA expression. To test if age, sex, and dAIH effects are associated with differential expression of molecules that regulate the Q- and S-pathways and their cross-talk interactions to phrenic motor facilitation, we analyzed key regulatory molecules in ventral spinal (C3-C5) homogenates from young (3-month) and middle-aged (12-month) male and female Sprague-Dawley …

A Cross-Sectional Analysis: Employment And Its Impact On Physical Activity, Academic Performance, And Quality Of Life Among Bellarmine University Students, Orlando Exposito Nuñez

Undergraduate Theses

Introduction: Half of undergraduate students are employed, meaning they must balance work with academics, physical activity (PA), and personal responsibilities. This study examines the potential negative impact of employment on PA, academic performance, and quality of life (QOL) among college students. Methods: The cross-sectional survey comprised 125 Bellarmine University students (Age 21.07 ± 3.40; 52% female, 48% male). Measures included the RAND SF-36 for QOL, the International Physical Activity Questionnaire Short Form (IPAQ-SF), and a custom academic and employment questionnaire. Racial and ethnic demographics included White (75.2%), Black or African American (11.2%), Hispanic or Latino (15.2%), Asian (4.8%), Multiracial (4.8%), …

Effect Of Heat Stress On Ileal Epithelial Barrier Integrity In Broilers Divergently Selected For High- And Low-Water Efficiency, Elizabeth S. Greene, Brooklee Roach, Maria Fernandez Cuadrado, Sara Orlowski, Sami Dridi

Poultry Science Faculty Publications and Presentations

Water scarcity and rising global temperatures are two of the greatest current and future threats to poultry sustainability. Therefore, selection for water efficiency (WE) and heat resilience are of vital importance. Additionally, intestinal integrity is of critical importance under challenging conditions to maintain nutrient absorption and therefore, growth and performance of broilers. Here, we examined the effect of chronic cyclic heat stress (HS) on the ileal expression profile of tight-junction, gap-junction, adherens, and desmosome genes in the fourth generation of divergently selected low (LWE)- and high water efficient (HWE)-chicken lines. LWE birds exhibited higher levels of gut permeability, regardless of …

Benchmarking Large Language Models For Biomedical Natural Language Processing Applications And Recommendations, Qingyu Chen, Yan Hu, Xueqing Peng, Qianqian Xie, Qiao Jin, Aidan Gilson, Maxwell B Singer, Xuguang Ai, Po-Ting Lai, Zhizheng Wang, Vipina K Keloth, Kalpana Raja, Jimin Huang, Huan He, Fongci Lin, Jingcheng Du, Rui Zhang, W Jim Zheng, Ron A Adelman, Zhiyong Lu, Hua Xu

Faculty, Staff and Student Publications

The rapid growth of biomedical literature poses challenges for manual knowledge curation and synthesis. Biomedical Natural Language Processing (BioNLP) automates the process. While Large Language Models (LLMs) have shown promise in general domains, their effectiveness in BioNLP tasks remains unclear due to limited benchmarks and practical guidelines. We perform a systematic evaluation of four LLMs-GPT and LLaMA representatives-on 12 BioNLP benchmarks across six applications. We compare their zero-shot, few-shot, and fine-tuning performance with the traditional fine-tuning of BERT or BART models. We examine inconsistencies, missing information, hallucinations, and perform cost analysis. Here, we show that traditional fine-tuning outperforms zero- or …

Assessing The One Health (Ecosystem, Animal And Human Health) Impacts Of Current Dietary Patterns Based On Farm-To-Fork Life Cycle Assessment In The Republic Of Ireland, Daniel Tymko Burke, Paul Hynds, Anushree Priyadarshini

Articles

Food production and dietary patterns play a central role in the myriad interactions among human, animal, and environmental health, emphasising the need for a One Health approach, and this study aims to evaluate dietary patterns within this framework. A cross-sectional dietary survey of adults was undertaken (2021) with a sample size of 957 respondents, representative of the population of Ireland. Subsequently, a farm-to-fork life cycle assessment (LCA) was employed to assess nine human health and environmental impacts (fine particulate matter formation, freshwater and marine ecotoxicity and eutrophication, human carcinogenic and non-carcinogenic toxicity and terrestrial acidification and ecotoxicity) across thirteen distinct …

Assessing A Possible Effect Of Males' Pheromones In The Phonotaxis Of Female Acheta Domesticus, Addy Rodriguez Velasco

Honors Theses

Acoustic communication in crickets is crucial for reproduction. Females respond phonotactically to the male's call. Prior research evaluating the selectivity of phonotaxis in these females, has focused on females that have been isolated from males from day 1 after metamorphosis. However, assessing phonotaxis in females raised in the presence of males, remains to be done. This study aims to investigate the phonotactic response of female Acheta domesticus that were housed with males prior to testing.

Results indicate that on average, male-exposed females respond phonotactically to a wider range of calls that those females in the control group. These results rule …

Understanding Strain-Level Dynamics In Gut Commensal-Pathogen-Host Interactions, Anna Louise Deveaux

Arts & Sciences Graduate Student Theses and Dissertations

The human gut microbiome is a consortium of trillions of bacteria, archaea, fungi, and viruses that colonizes the gastrointestinal tract and promotes health under homeostatic conditions. This microbial community trains the immune system, modulates inflammation and anticancer immunity, promotes cardiometabolic health, enables nutrient extraction, and prevents pathogen overgrowth. The latter function manifests through colonization resistance, in which microbes occupy spatial and nutritional niches thereby excluding pathogens from the community entirely, and through limiting pathogen population growth if colonization occurs. These roles are facilitated by complex host-microbe and microbe-microbe interactions that underlie differences in susceptibility to microbiome-mediated infectious diseases. The strain-level …

Modeling The Cystic Fibrosis Intestinal Environment To Study Microbial Interactions, Kaitlyn Emma Barrack

Dartmouth College Ph.D Dissertations

The microbiome of the cystic fibrosis (CF) intestine is altered significantly in structure and function beginning in early life. Key taxa associated with health, digestion and immune-training are reduced in abundance, including but not limited to Bacteroides, Faecalibacterium, Akkermansia, Ruminococcus and other short-chain fatty acid producers. Conversely, there is an expansion of microbes with pathogenic potential, such as Escherichia, Veillonella, Pseudomonas and Staphylococcus. The shifts in microbiota composition direct community-wide changes with differences in beta diversity by genotype, whereby children with CF (cwCF) exhibit significantly different gut microbial compositions compared to nonCF children. Additionally, shifts in microbiota structure often …

What's That Sound?: Characterizing Chemical Signals In Bradyrhizobium Japonicum Strains, Sophia Nicolette Militante

Miners Solving for Tomorrow Research Conference

No abstract provided.

Reproductive Performances Of Bali Cattle Under Different Management Systems For Designing Their Breeding Strategies, Dwi Hariyono, Panjono Panjono, Dwi Priyadi, Adisti Rastosari, Eny Endrawati, Tety Hartatik

The Thai Journal of Veterinary Medicine

Reproductive performance is an economically important trait in beef cattle breeding and improvement programs, as it directly influences overall productivity. Key performance indicators, such as age at puberty (AP), age at first mating (AFM), age at first calving (AFC), calving intervals (CI), days open (DO), number of services per conception (NSC), conception rate (CR), and gestation length (GL), can be used to assess reproductive performance. This review summarized findings from previous studies on the reproductive performance of Bali cattle under various management conditions in Indonesia. The literature indicated a range of reproductive performances in Bali cattle, with AP varying from …

The Role Of Vibration Amplitude In The Escape-Hatching Response Of Red-Eyed Treefrog Embryos, Julie Jung, Michael S. Caldwell, Gregrory Mcdaniel, Karen Warkentin

Biology Faculty Publications

Red-eyed treefrogs hatch early when attacked by snake or wasp egg predators. They use vibrations generated by attacks to identify these threats but other, harmless environmental disturbances also produce strong vibrations within egg clutches. This study examines the complex ways embryos use vibrations amplitude information to ensure they hatch only when a real threat is present.

Computational Sensitivity Evaluation Of Ultrasound Neuromodulation Resolution To Brain Tissue Sound Speed With Robust Beamforming, Boqiang Fan, Wayne Goodman, Sameer A Sheth, Richard R Bouchard, Behnaam Aazhang

Faculty, Staff and Student Publications

Low-intensity focused ultrasound (LIFU) neuromodulation requires precise targeting and high resolution enabled by phased array transducers and beamforming. However, focusing optimization usually relies on phantom measurements or simulations with inaccurate acoustic properties to degrade neuromodulation resolution. Therefore, this work analyzes the sensitivity of neuromodulation resolution, measured by off-target activation area (OTAA), to brain tissue sound speed. A Robust Optimal Resolution (ROR) beamforming method is proposed to minimize the worst-case OTAA with restricted sound speed inaccuracy and propagation information estimated with deviated sound speed. The propagation estimation model utilizes equivalent source method (ESM) to map sound field between different acoustic parameter …

Combining Checkpoint Therapy And Il-6 Receptor Inhibition In Non-Small Cell Lung Cancer, Sruti Sivan, Joel L. Berry, Aakash Desai, James M. Donahue, Jessy S. Deshane, Kayla F. Goliwas

Expo Student Presentations

2025 Spring Expo Poster Presentation

• Biological & Life Sciences

Barcoding The Unknown: Primer Development For Diverse Nematode Strains, Alegria O. Bautista

Research and Creativity Symposium

DNA barcoding has significantly advanced species identification and revealed many cryptic species with significant biomedical and agricultural research applications. Nematodes are frequently used in DNA barcoding due to their short generation times and ease of laboratory maintenance. However, the rapid increase in newly discovered species presents a taxonomic impediment, where traditional identification methods struggle to keep pace. In this study, unknown nematode strains underwent a modified Caenorhabditis elegans bleaching protocol to eliminate contamination and accommodate varying developmental stages. DNA was extracted and amplified using polymerase chain reaction (PCR), targeting regions of the 18S ribosomal RNA (rRNA) gene. Established primers (18S …

Research Day 2025 Program, Western Michigan University Homer Stryker M.D. School Of Medicine

Research Day

No abstract provided.

Wrack Lines Spring-Summer 2025, Volume 25, Number 1, Megan Bard, Ronald Goldberg, Clayton Mcgoldrick, Judy Benson

Wrack Lines

Spring-Summer 2025 issue of CT Sea Grant's biannual magazine focuses on the theme of, "Finding their niche: Unique ways of serving people and the environment," with profiles of six standouts in various environmental fields.

2025- The Twenty-Ninth Annual Symposium Of Student Scholars

Symposium of Student Scholars Program Books

The full program book from the 29th Annual Symposium of Student Scholars, held on April 16-18, 2025. Includes abstracts from the presentations and posters.

Strategies Of Animal Rescue Organizations In Agadir, Morocco: Addressing Cultural, Biological, And Government Challenges, Jacey Lynn Ramos

Morocco: Human Rights, Social Justice, and Cultural Transformation

Animal rescue organizations in Agadir, Morocco, play a critical role in confronting the intersecting challenges of stray animal overpopulation, zoonotic disease risks, and insufficient government support. This research examines how these organizations respond to cultural perspectives, public health concerns, and state-endorsed culling policies through a combination of field observation, social media analysis, and interviews. Focusing on two major NGOs (Non- Government Organizations) including Sunshine Animal Refuge Agadir (SARA) and Morocco Animal Aid (MAA), the study compares their outreach strategies, operational transparency, and organizational effectiveness. Findings reveal that while SARA offers a structured, humane model centered on TNVR (Trap-Neuter-Vaccinate-Return) and community …

Bridging Theory And Practice: Experiential Learning In Measurement And Evaluation, Emily Washburn, Brooke Befort, Haley Bertrand

SACAD: Scholarly Activities

Experiential learning provides students with valuable opportunities to apply theoretical knowledge in real-world settings. In HHP 340: Measurement and Evaluation at Fort Hays State University (FHSU), students engaged in hands-on application by designing and implementing an athletic combine. The combine featured a comprehensive battery of tests, including the 20-yard dash, vertical jump, wall sit test, medicine ball throw, 3-minute plank test, 5-10-5 pro agility drill, L agility drill, and standing broad jump.

A vital component of this initiative was a community partnership with advanced weight training students from Hays High School and Thomas More Prep-Marian High School. These high school …

Butterflies And Climate Change Evaluating Biodiversity Through Bioindication In A Western Ecuadorian Cloud Forest, Ashley Schlinger

Ecuador: Comparative Ecology and Conservation

Ecuadorian cloud forests are crucial water sources and biodiversity hotspots, often inhabited by various butterfly species. However, as telltale bioindicators, butterfly populations react to changes in their environment by demonstrating fluctuations in their abundance (Horn, 2017). Changes to the environment are often induced in the present day through human impact, such as the installation of agricultural land, deforestation, ecotourism, and the residual effects of climate change caused by these activities. This study aimed to investigate butterfly abundance and species diversity in La Hesperia Cloud Forest Reserve in the western slope of the Ecuadorian Andes and the response of butterfly assemblages …