Digital Commons Network^™

Organic-Complexed Or Inorganic Trace Mineral Tub Supplementation: Impacts On Productivity And Reproductive Outcomes In Beef Cows And Heifers, Jacy Riddle

Graduate Theses and Dissertations

The objective of these experiments was to investigate the effects of organic-complexed or inorganic trace minerals (copper, cobalt, manganese, and zinc) on cow reproductive performance, suckling calf growth, as well as heifer development and reproductive outcomes utilizing free-choice tub supplementation. In lactating cows, treatments consisted of molasses-based tub supplementation containing either complexed or inorganic trace minerals, with an additional pre-breeding drench administered only to cows receiving complexed minerals. The drench contained complexed or organic copper, cobalt, manganese, and zinc. Supplementation began approximately 6 weeks prior to fixed-timed artificial insemination (FTAI) and continued until bull removal (d 105). In weaned replacement …

The Role Of Speculators In The Agricultural Futures Market And Their Impact On Prices, Clement Asamoah

Graduate Theses and Dissertations

The study evaluates the impact of speculative activity on agricultural commodity returns, specifically in the corn, soybeans, rice, and oats markets. The study also analyzed the influence commodity returns have on speculative positions. Weekly data from the Commodity Futures Trading Commission were used as a proxy for speculative activity, and futures data were also retrieved from Barchart. Vector Autoregressive models and the Granger Causality tests were estimated to identify the relationships between returns and speculation. The paper found that speculative positions do not Granger-cause returns over the course of a week except for rice Tuesday results, which recorded a statistically …

Identifying Muscle Health Deficits Among Older Adults With And Without Cognitive Impairment, Ray Guerreros Urbina

Graduate Theses and Dissertations

Age-related declines in skeletal muscle health (SMH) and cognitive function are major contributors to disability, loss of independence, and reduced quality of life among older adults. Emerging evidence suggests that skeletal muscle and cognitive health may be interconnected through shared physiological mechanisms; however, the relationships between specific aspects of SMH and cognitive performance remain unclear. Therefore, the purpose of this study was to examine the relationships between SMH and cognitive performance among older adults and to determine whether SMH differs between cognitively healthy and cognitively impaired individuals after accounting for age and physical activity. A cross-sectional analysis was conducted using …

Investigation Into Molecular Bases Of Pregnancy-Associated Malaria, Nicole Pozo

Biochemistry and Molecular Biology

Plasmodium falciparum causes the most severe and deadly form of malaria and remains a major global health problem, especially in sub-Saharan Africa (Milner, 2018). The parasite infects and multiplies inside red blood cells, leading to fever, anemia, organ damage, and death if untreated (Milner, 2018; Song et al., 2022). It is especially dangerous because it avoids the immune system by changing surface proteins called Plasmodium falciparum erythrocyte membrane protein 1 (PfEMP1), which are encoded by more than 60 var genes. By switching between these genes, the parasite hides from immune detection and creates repeated waves of infection (Deitsch & Dzikowski, …

Acute Intermittent Hypoxia And Acute Intermittent Hypercapnic Hypoxia Elicit Cortico-Diaphragmatic Plasticity In People With Chronic Spinal Cord Injury, Alysha Bogard, Michela Mir, Tommy Sutor, Jessica Dunn, Kathryn Cavka, Arian Vistamehr, Hannah Snyder, Joseph Welch, Jayakrishnan Nair, Gina Brunetti, Gordon Mitchell, Emily Fox

Department of Physical Therapy Faculty Papers

Respiratory impairment is a leading cause of morbidity and mortality after spinal cord injury (SCI), highlighting the need for interventions that improve breathing function. In people with SCI, acute intermittent hypoxia (AIH) elicits respiratory motor plasticity and improves inspiratory function. However, in uninjured people facilitation of corticospinal diaphragm motor evoked potential (MEP) amplitude occurs only when AIH is combined with mild hypercapnia (acute intermittent hypercapnic hypoxia; AIHH). It remains unclear whether AIHH similarly enhances diaphragm corticospinal excitability after SCI. We tested the hypothesis that AIHH increases diaphragm MEP amplitude and reduces MEP onset latency in individuals with chronic SCI, whereas …

Interpretable Machine Learning Of Plasma Proteomics Reveals Stage-Specific Signatures Across The Alzheimer's Disease Continuum, Hemshankar Laugi

2026 Spring Honors Capstones Projects

Alzheimer’s pathology begins years before clinical symptoms, starting early with amyloid-β accumulation, followed by tau deposition and neurodegeneration. Although existing tools, such as cerebrospinal fluid (CSF) screening and PET/MRI imaging, can accurately track disease progression, they are invasive, expensive, and not scalable for population-level screening. So, there is a growing interest in using blood-based plasma biomarkers as a scalable alternative. While recent studies demonstrate strong predictive performance with plasma biomarkers, most rely on a small set of canonical blood-based protein biomarkers such as amyloid-β, p-tau, and neurofilament light. These biomarkers primarily reflect downstream brain pathology and may fail to capture …

Exploring Primary Care Providers’ Compassionate Care And Their Evidence-Based Practice With Death, Grief, And Loss: Patient Experience And Perspective, Kathryn Krzykala

Dissertations

Research on primary care providers’ (PCPs) education regarding Death, Grief, and Loss (DGL) remains limited. Specifically, data is lacking regarding patients' perceptions and opinions on what they need and expect from their PCPs regarding grief and loss. This exploratory mixed-method study comprised 146 participants who had experienced death and non-death loss. It examined participants' perceptions of 1) PCP compassion, 2) PCP utilization of evidence-based grief and loss practices, 3) their own level of comfort discussing DGL with their PCPs during medical visits, and 4) their personal grief and loss experiences. The findings revealed that PCPs' grief-informed evidence-based treatment, as reflected …

Personalizable Metabolic Models To Enable Immune Characterization And Drug Discovery, Joshua Loecker

Department of Biochemistry: Dissertations, Theses, and Student Research

Cellular metabolism is reshaped by disease and physiological state, and genome-scale metabolic networks (GSMNs) offer a systematic way to interrogate this biology and identify therapeutic targets. Building a GSMN from expression data, however, requires a sequence of stages including read processing, normalization and gene-activity classification, multi-omic integration, model reconstruction, simulation, and biological interpretation. These are typically handled by disconnected tools spanning multiple programming languages, file formats, and databases. The resulting reliance on heterogeneous interfaces and manual steps threatens reproducibility. This work develops an ecosystem of computational tools that carry an analysis from raw sequencing reads to mechanistic biological interpretation. First, …

Assessing The Relationship Between The Degree Of Static And Dynamic Quadricep Angle And Kinetic Asymmetry Index % In Females During The Follicular Phase Of Menstruation, Madeline Grace Poirier

All NMU Master's Theses

The quadriceps angle (q-angle) quantifies lateral pull on the knee. Females have greater static and dynamic q-angles due to anatomical factors including a wider pelvis and more lateral tibial tuberosity, which may influence ACL injury risk. The kinetic asymmetry index (KAI %) measures limb-to-limb differences in ground reaction force (GRF) impulses during dynamic tasks including countermovement jumps (CMJs), with values > 10% linked to injury risk. During the follicular phase of the menstrual cycle, fluctuating hormones increase joint laxity, further heightening biomechanical vulnerability in females.

This cross-sectional study examined the relationship between static and dynamic q-angle and KAI % in active, …

Evaluating Variety- And Market-Class-Specific Effects Of Dietary Pulses On Human Health, Jiayu Tang

Department of Food Science and Technology: Dissertations, Theses, and Student Research

While pulses are globally recognized for their high levels of dietary fibers, protein, and polyphenols, research often focuses on characterizing the physiological effects of a single variety. This approach overlooks the substantial genetic and compositional diversity that exists across pulse varieties and individual market classes, which can differ extensively in nutrient content and structure. These compositional differences have the potential to produce distinct physiological and microbial responses in humans, yet variety- and market-class-specific effects remain poorly characterized.

This thesis uses two complementary research methodologies to investigate the health-relevant effects of different pulse varieties and market classes, providing foundational knowledge to …

Proteogenomics Of Hypertrophic Cardiomyopathy Reveals Subtype-Specific Therapy, Ke Ma, Jie Yang, Hongchang Guo, Ping Li, Xiaowei Li, Zhujun Dong, Jing Zhang, Congcong Zhang, Pengli Yang, Chongpei Hua, Shuolin Zhu, Guoqing Li, Jianchao Zhang, Ningyu Ding, Jizheng Wang, Xin-Liang Ma, Zhuofeng Lin, Jianzeng Dong, Yang Li, Yulin Li

Department of Emergency Medicine Faculty Papers

BACKGROUND: Hypertrophic cardiomyopathy (HCM) is a heterogeneous disease with diverse prognosis. The underlying mechanisms remain unknown, resulting in limited risk stratification and therapeutic strategies. This study aimed to elucidate molecular subtypes of HCM through integrated proteogenomic analysis and explore subtype-specific therapeutic strategies.

METHODS: We conducted an integrated proteogenomic analysis of 132 patients with HCM using myocardial samples, incorporating whole-exome sequencing, RNA sequencing, and proteomics. Unsupervised clustering was used to identify HCM subtypes, which were validated in heart tissues and human induced pluripotent stem cell-derived cardiomyocytes from 2 independent HCM subsets. Subtype-specific signatures and pathways were explored, and their causal link …

Valorization Of Rice Bran For Functional Film Fabrication Using Cold Plasma For Food Packaging And Biomedical Applications, Saydul Md Safwa

Graduate Theses and Dissertations

Abstract Over the past few years, conventional plastic packaging materials have become increasingly concerned with their environmental impact. Therefore, the demand for bioplastics has been increasing significantly over the years. Rice milling, a process that modifies paddy rice into edible rice, generates by-products such as rice bran. Rice bran has cellulose, hemicellulose, lignin, and protein, which makes it a potential material for bioplastic fabrication. However, like most biodegradable films, rice bran films fall short when it comes to practical packaging applications. They often lack the strength, flexibility, moisture resistance, and barrier performance needed to compete with synthetic plastics. Most importantly, …

Multi-Ancestry Polygenic Risk Scores For The Prediction Of Type 2 Diabetes And Complications In Diverse Ancestries, Alicia Huerta-Chagoya, Joohyun Kim, Ravi Mandla, Yingchang Lu, Ken Suzuki, Lauren E. Petty, Hong Kiat Ng, Jaewon Choi, Simon Lee, John Blangero

Human Genetics Publications

Background: Polygenic risk scores (PRSs) improve prediction of the development of type 2 diabetes over the use of clinical risk factors alone; however, they perform poorly in populations of non-European ancestry, limiting their global clinical utility. We aimed to deliver comprehensive and rigorously tested multi-ancestry PRSs for prediction in type 2 diabetes.

Methods: We conducted meta-analyses using data from type 2 diabetes genome-wide association studies (GWAS) across cohorts from five major global ancestries: European, African or African American, Admixed American, South Asian, and East Asian. We used summary statistics from the GWAS to construct single-ancestry PRSs (using the continuous-shrinkage PRS-CS …

Valorisation Potential Of Microalgae As A Sustainable Source Of Lipids And Health Promoting Compounds, Bozena Mccarthy

Theses

The transition toward a circular bioeconomy requires sustainable strategies for managing and valorising food industry effluents while reducing reliance on environmentally damaging raw materials such as palm oil, which is associated with deforestation, biodiversity loss and greenhouse gas (GHGs) emissions. Microalgae represent a promising platform for converting nutrient rich industrial by-products into biomass and high-value compounds for food, nutraceutical and bio-based applications. Dairy processing generates large quantities of whey, creating environmental challenges due to its high organic load. Improved whey treatment and valorisation strategies are therefore essential for enhancing sustainability in food production systems. In this study, the biomass productivity …

How Do Different Food Influents Affect Biogas Production, Process And Operational Stability, And System Performance In The Armfield W8, A Bench-Scale Anaerobic Digester, Jarko Rumbaoa, Anahita Adhikari

Rose-Hulman Undergraduate Research Publications

No abstract provided.

Guide To The Erath Winery Collection, Linfield College Archives

Linfield Archives Finding Aids

The collection was donated by Richard (Dick) Erath, the founder of the Erath Winery in Dundee, Oregon. The collection contains financial information about the Winery, publicity found in newspapers and magazines, personal plans, details of the wine-making process, multiple drafts of the biographical book The Boys Up North; among much other information, and a bottle of the first commercial wine produced by the Erath Winery in 1972.

Effects Of Soil Contamination On The Efficacy Of Antimicrobial Washes For Contaminated In-Shell Pecans, Erin Ramsay

Graduate Theses and Dissertations

A study was done to evaluate the survival of Shiga toxin-producing Escherichia coli (STEC) on directly and soil-inoculated in-shell pecans over a 28-day period, determine STEC reductions after treatment with individual and sequential antimicrobial washes on direct and soil-inoculated in-shell pecans, and determine the cross-contamination potential of the spent pecan washes after a treatment. Pecans were directly and soil-inoculated with an STEC cocktail (O157:H7, O157:NM, O121, and O26). Direct inoculation was achieved by spraying the STEC cocktail on the pecans and homogenizing by hand for 2 min. For the soil-inoculation method, autoclaved pecan tree orchard soil was sprayed with the …

Evaluation Of Loading, Release, And Bioavailability Of Resveratrol Encapsulated In Porous Starch, Yu-Yun Wang

Graduate Theses and Dissertations

Resveratrol (Res) is a polyphenolic compound found in grapes, red wine, and berries, with health benefits such as antioxidant, anti-inflammatory, and cardioprotective properties. The poor stability and bioaccessibility of Res after consumption by humans require the development of delivery systems. Among many delivery systems, porous starch (PS) is a safe, cost-effective, and high in adsorption capacity encapsulation material for drugs and bioactive compounds sensitive to environmental factors like light and heat. Porous rice, corn, and potato starch have different granule sizes, pore volumes, and surface areas. However, the impact of these encapsulation capabilities remains unclear among the three porous starches. …

The Unexpected Role Of Conditionality In Shaping Relational Values: Insights From An Incentive-Based Conservation Program In Bolivia, Brooke Mcwherter, Will Munger, Zhao Ma, Claudia Radel, Laura Zanotti, Jonathan Bauchet, Ricardo Godoy

Department of Agricultural Economics Faculty Publications

As global change accelerates, Payments for Ecosystem Services (PES) programs have become increasingly important tools for addressing the interconnected challenges of land degradation, biodiversity loss, water scarcity, and climate change. PES programs provide incentives to individuals or communities, conditional on people adopting sustainable natural resource management practices to support or increase ecosystem service provisioning. Although conditionality is considered a “PES-defining feature,” little is known about how conditionality is perceived by community members and how such perceptions influence their participation in and experience with PES programs. To address this gap, we conducted an extensive qualitative study of Watershared, an incentive-based conservation …

Nitrogen Use Efficiency Of Rice Expressing Arabidopsis Thaliana Dreb1a Gene, Yanis Anetha Vasquez Valdes

Graduate Theses and Dissertations

Rice is a globally consumed crop and feeds more than half of the world’s population. Nitrogen (N) fertilization is required for increasing rice crop production and yield, but producers often overuse N fertilizers, exceeding plant uptake capacity. Around 40% of the applied N is lost through volatilization and denitrification to the environment, causing algal bloom formation, greenhouse gas emissions, and water pollution. Therefore, improving nitrogen use efficiency (NUE) in rice has become a principal objective to achieve sustainable agriculture. NUE is a complex trait in rice that coordinates three processes: nitrogen uptake, transport and assimilation, which together support photosynthesis, biomass …

Evaluation Of Thresholds For Adult Tarnished Plant Bug, Lygus Lineolaris (Beauvois), In Thryvon® Cotton, William Anderson Fletcher

Graduate Theses and Dissertations

Tarnished plant bug (TPB) is the most economically damaging insect pest of Mid-South cotton. TPB reduces yield is reduced by damaging squares, terminal growth, and small bolls, resulting in reduced yield. Currently, cotton grown in the Mid-South averages 1-6 insecticide applications per year for control of TPB. The introduction of ThryvOn® cotton technology provides a new management strategy for TPB control. ThryvOn® technology produces the Bacillus thuringiensis (Bt) protein Mpp51Aa2, which has insecticidal activity on TPB. A field study was conducted at five locations in 2024 and seven locations in 2025 across the Mid-South to evaluate different threshold levels for …

Plasma And Extracellular Vesicle–Enriched Protein Profiles In Chronic Rhinosinusitis, Aryana Amin, Rutviben P. Shah Bds, Dhvani Parikh Mph, Niki Mirhosseini Bs, Baharan Fekry Phd, Donyea L. Moore, Mahboobeh Mahdavinia Md, Phd

Summer Research Program Abstracts

No abstract provided.

Microrna Regulation Of Human Trophoblast Stem Cell Proliferation, Eva E. Adams, Madison Vu, Jacqueline G. Parchem

Summer Research Program Abstracts

No abstract provided.

Loss Of Palmitoylation Impacts The Interaction Between The Organic Anion Transporting Polypeptide (Oatp) 1b1 And Oatp1b3., Cecilia E. Villanueva, Whitney M. Nolte, Priscilla Flores-Ascencio, Bruno Hagenbuch

Manuscripts, Articles, Book Chapters and Other Papers

The organic anion transporting polypeptide (OATP) 1B1 and OATP1B3 are hepatic transporters that mediate the uptake of numerous therapeutics like antibiotics and statins. Various post-translational modifications, eg, phosphorylation and glycosylation, have been shown to impact OATP1B1 and OATP1B3 function and localization. S-palmitoylation (also known as S-acylation or palmitoylation) is a reversible post-translational modification that adds palmitic acid (C16:0) to cysteine residues and can influence a protein's function, localization, and protein-protein interactions. In this study, we investigated and characterized palmitoylation in OATP1B1 and OATP1B3. Using site-directed mutagenesis and acyl-resin-assisted capture assays, residue Cys24 was identified as the palmitoylation site for both …

Mechanistic And Spatio-Temporal Modelling Of Cassava Whitefly (Bemisia Tabaci) Risk Under Climate Change: Projections For Africa With Case Evidence From Malawi, Lumbani Benedicto Banda, Frank Thomas Ndjomatchoua, Ritter A. Guimapi, Komi Mensah Agboka, Abdelmutalab G.A. Azrag, Wezi G. Mhango, Trust Kasambala Donga, Chikondi Makwiza, Karl H. Thunes, Elfatih M. Abdel-Rahman

All Peer-Reviewed Publications

The cassava whitefly (Bemisia tabaci) greatly constrains cassava production across Africa due to its role as a vector of viral diseases that cause substantial yield losses. Effective management of this insect pest requires detailed knowledge of its spatio-temporal distribution, however long-term datasets are scarce. Mechanistic models circumvent these long-term data needs by modelling temperature-dependent processes that govern population dynamics. Nevertheless, their application to B. tabaci remains poorly explored. Here, we developed a mechanistic model to derive a risk index (RI) for B. tabaci across Africa, focusing on Malawi. The model integrates the effects of temperature on the life stages of …

Seasonality Of Bovine Respiratory Disease Incidence, Nasal Temperatures, And The Nasal Microbiome In Receiving Beef Cattle: Understanding The Risk Of The Bovine Respiratory Disease Complex, Robin Ashley Cheek

Graduate Theses and Dissertations

Bovine respiratory disease (BRD) has persistently been the leading cause of morbidity of beef cattle in the United States. Season has been directly associated with respiratory disease incidence and is likely a proxy for weather conditions, which vary by geographical location. The nose is one of the first points of contact between the outside environment and inside the body. The nasal microbiome and its relationship with BRD have been heavily studied within beef cattle, but there are not yet any studies to determine if the environment within the nasal cavity has a role to play in this mechanism. This dissertation …

Implementation Study Of Aortagpt, An Ai Decision Support Tool For Heritable Thoracic Aortic Disease, Noah Mathai

Summer Research Program Abstracts

No abstract provided.

Antioxidant And Anti-Hemolytic Capacities Of Eucalyptus Camaldulensis Leaves, Achwaa Chbib, Malak Mezher, Mohamad Nasser, Akram Hijazi, Mahmoud I. Khalil

BAU Journal - Science and Technology

The effects of medicinal plants on the prevention of many diseases are due to their chemical composition. Eucalyptus camaldulensis (E. camaldulensis) is a native tree in Australia. Its extracts and essential oils (EOs) are applicable in the domains of pharmaceuticals and medicine. This work determined the anti-hemolytic and antioxidant capacities of the ethanolic (EE), methanolic (ME), and aqueous (AE) extracts from the leaves of Lebanese E. camaldulensis.  The leaves of E. camaldulensis were extracted with ethanol, methanol, and water solvent. Qualitative phytochemical analyses were applied to reveal the compounds of these extracts. The Folin-Ciocalteau and Aluminum chloride …

Analysis Of Priority Vaccine-Preventable Diseases Using The Paho-Adapted Hanlon Method In Bogor City In 2024, Sonia Annisa Br Ketaren, Tri Yunis Miko Wahyono, Bai Kusnadi

Jurnal Epidemiologi Kesehatan Indonesia

Vaccine-preventable diseases (VPDs) remain a major public health challenge despite substantial progress in immunization programs. In Indonesia, routine immunization coverage has shown a post-pandemic recovery trend; however, disparities in access to health services and surveillance quality persist across regions. This study aimed to determine priority VPD problems in Bogor City and identify factors contributing to the highest-ranked disease. A mixed-methods study was conducted in Bogor City from October 2024 to January 2025. Quantitative prioritization was performed using the Pan American Health Organization (PAHO)-adapted Hanlon method across eight VPDs. Qualitative data were collected through in-depth interviews with key informants and analyzed …

The Development Of An In Silico Vaccine Design-Based E-Module To Improve Students' Biological Literacy, Qairinasherin Qwine Ferendi, Rusdi Rusdi, Hanum Isfaeni

Jurnal Pendidikan Sains

Low levels of biological literacy among students, particularly in biotechnology, highlight the need for innovative digital learning media that facilitate meaningful and contextual learning experiences. This study aimed to develop and evaluate an interactive biotechnology e-module based on in silico vaccine design to improve students’ biological literacy. The study employed Educational Design Research (EDR) using the Hannafin and Peck model, which consists of three phases: needs assessment, development, and implementation. The participants included 73 tenth-grade science students and one biology teacher from SMAN 68 Jakarta, Indonesia. The e-module was developed using Canva and Heyzine to create an interactive flipbook integrating …