Life Sciences Commons^™

Using Zebrafish To Investigate The Innate Immune Response To R132h Mutant Glioma, Mikaela L. Fairbanks

All NMU Master's Theses

Gliomas are the most commonly occurring brain tumor found in adults. The most dominant mutation found in glioma is in the isocitrate dehydrogenase 1 (IDH1) gene. IDH converts isocitrate into α-ketoglutarate (α-KG), but the mutated form of it will take α-KG and further convert it into D-2-hydroxyglutarate (D-2-HG). Mutated IDH1 glioma (mIDH1) produces a higher concentration of D-2-HG than the wild-type IDH1 glioblastoma (wtIDH1). These mIDH1 tumors tend to have a better prognosis, growing slower and having less inflammation than the wtIDH1 counterpart, potentially due to the increased D-2-HG. However, the effects of mIDH1 and D-2-HG on the innate immune …

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, …

Developing Solvent-Based Recycling Methods At Ambient Conditions To Regenerate Bisphenol A Diglycidyl Ether And Recover Metal Oxides From Epoxy Nanocomposites, Heaven Smith

Rose-Hulman Undergraduate Research Publications

No abstract provided.

Evaluating Fungicide Programs For Grapevine Disease Management And Fungicide Sensitivity Monitoring, Abraham Ahumada

Master's Theses

Grapevine diseases, such as powdery mildew and Botrytis bunch rot, require repeated fungicide applications to maintain fruit quality and reduce yield losses. However, fungicide performance can vary among products, application programs, disease pressure, and pathogen sensitivity. This thesis evaluated fungicide programs for control of powdery mildew in ‘Chardonnay’ grapes and assessed fungicide sensitivity of Botrytis cinerea isolates collected from California vineyards.

Powdery mildew, caused by the fungal pathogen Erysiphe necator, is a major threat to the production of Vitis vinifera grapes worldwide. Because powdery mildew management relies heavily on fungicide applications, field evaluations are needed to compare the efficacy …

Birds Of A Tether Flock Together: Examining Centromere Tethering And Chromosome Segregation In Caulobacter Crescentus, Jake Dwyer, Simon Kruczak, Rodrigo Arana-Garrido, Paola Mera

MICRO-CCS student projects

Introduction:

Chromosome segregation is essential for all domains of life. Caulobacter crescentus is a key model for studying this process. It divides asymmetrically into two morphologically distinct cells. Proteins can be seen directly with fluorescent tags.

Research done on Caulobacter can apply to many different bacteria. The ParABS system is integral to chromosome segregation in Caulobacter.

ParS – DNA sequence on the chromosome

ParB – CTP-binding protein that specifically recognizes parS

ParA – ATP-binding protein that non-specifically binds DNA and provides the force for segregation.

PopZ – Polar tethering protein via interactions with ParB.

TipN - Polar protein that …

Has Plant Domestication Compromised Plant Defensive Chemistry? Aphid Induced Stress In Tomatoes, Nhi Do, Satinderpal Kaur, Minxing Zhu, Esther N. Ngumbi

MICRO-CCS student projects

Tomato plants have natural defensive mechanisms.

Direct: Phenolics are secondary metabolites that can protect the plant by intoxicating the herbivores and/or producing strong repulsive odors.

Indirect: VOCs, Volatile Organic Chemicals, are gas phase signals that attract the predators of the attacking herbivore to the plant.

Domestication of plants may chemically alter these defenses by prioritizing fruit production over defensive traits.

We hypothesize that wild/ancient tomato plants would have a greater quantity of volatiles and increased concentration of leaf total phenolics compared to cultivated tomatoes during aphid herbivory.

How Does High-Oil Sorghum Change Potential Extracellular Enzyme Activity Across Soil Depth Profiles Under Drought Conditions?, Krystal Monique Role, Rounak Patra, Wendy Yang

MICRO-CCS student projects

Transgenic oil sorghum reallocates photosynthate-carbon (C) into vegetative lipids, accumulating nonstructural lipids in both shoot and root tissues. Altered plant C allocation and root lipid accumulation may shift root exudate chemistry, belowground C inputs, and microbial nutrient demand throughout the soil profile. While aboveground productivity in high-oil sorghum is well-characterized, its belowground impacts on soil microbial enzyme activity and exchangeable cation dynamics, especially across soil horizons under drought stress remain unknown.

Project objective was to find out how transgenic high oil sorghum (Tx-HO1) influences CNP acquiring extracellular enzyme activities and soil exchangeable cation dynamics across soil horizons under drought and …

Investigation Of Biological Denitrification Inhibition By Specific Anthocyanins, Kristin Palazzo, Holly Anderson, Aislinn Geedey, Angela Kent

MICRO-CCS student projects

Nitrogen fertilizers are applied to corn fields to support high crop yields, but some nitrogen is lost through microbial denitrification, producing nitrous oxide (N2O), a potent greenhouse gas. Some plants produce certain flavonoids that can suppress microbial denitrification, a trait known as biological denitrification inhibition (BDI). Maize produces flavonoids in the form of anthocyanins, including cyanidin-3-glucoside (C3G), the major anthocyanin produced by maize.

The goals of this project were to determine whether C3G:

is produced in maize roots

inhibits microbial denitrification

Recovering Plasmid-Id Barcoded Strains Of Sinorhizobium Meliloti From A Native Soil Microbiome, Kenny Sacks, Hannah Murray, Katy Heath

MICRO-CCS student projects

Introduction

Legume-Rhizobia Mutualism: Nitrogen is an essential nutrient for plant growth. Plants can’t produce nitrogenous compounds. Rhizobia fix atmospheric nitrogen gas into bioavailable forms. Rhizobia form a nutrient exchange mutualism with leguminous plants.

Project description

Can our bacteria persist within the rhizosphere and into the nodule when faced with native microbial competitors? The Medicago-Sinorhizobium mutualism is used as a model system. Survival of strains post competition is difficult to measure due to identical 16S rRNA sequences and similar marker genes. Plasmid-ID barcoding sequences may provide a way of testing strains against a community.

Soil Microbiome Effect On Seedling Diseases And High Throughput Isolate Identification, Annalaysia Smith, Mara Krone, Santiago Mideros

MICRO-CCS student projects

The soil microbiome has a substantial effect on disease suppression. Organic farming is a practice used to create a more diverse microbiome which can create disease suppression. Different agricultural practices such as fertilization and rotation system are known to affect the microbiome (Schlatter et al 2017). Therefore, it is important to study the effects of different microbiomes on disease suppression. Furthermore, methods are necessary for quantifying the effect of disease suppression on specific pathogen populations. To do this, it is important to properly identify the pathogens.

Objectives:

1. Test if different nitrogen treatments cause variations in organic soils disease suppression. …

Effects Of Varying Ph Levels On Prophenoloxidase Activity And Hemocyte Recruitment In Daphnia Dentifera, Yusra Siddiqi, Carla Caceres

MICRO-CCS student projects

Anthropogenic activities and natural processes are responsible for changing the pH of freshwaters which can impact aquatic life. D. dentifera is a keystone species found in midwestern lakes that is susceptible to a parasitic yeast called Australozyma monospora. A. monospora spores puncture the Daphnia gut into the hemolymph and begin using the host’s resources. Invertebrate immunity is under researched.

Research objective: How will different pH impact prophenoloxidase (proPO) activity and hemocyte recruitment in Daphnia dentifera?

Screening A Random Hile Mutant Library To Characterize Hild Regulation In Salmonella, Danista Kannah, Gracious Donkor, James M. Slauch

MICRO-CCS student projects

Salmonella is a leading cause of gastrointestinal diseases globally. It utilizes a type three secretion system (T3SS) encoded on Salmonella Pathogenicity Island 1 (SPI1) to invade host intestinal epithelial cells during infection.

HilE directly regulates HilD via a direct protein-protein interaction. The Slauch lab identified two HilD variants, A141V and A141T, which are blind to HilE. These variants activate hilA expression even in the presence of HilE, indicating that the binding of HilE to these mutants is compromised.

Hypothesis: Performing random mutagenesis of hilE could lead to changes at the protein level which could compensate for the loss of interaction …

Fungal Diversity In Lespedeza Cuneata Roots, Gwendolyn Happ, Sophia Mcdade, Anthony Yannarell

MICRO-CCS student projects

Background

• Plants form a relationship with fungi that can be beneficial or harmful
• Fungi may grow on the plant surface, within plant tissues, or around roots
• Plants release compounds that invite fungi to their roots and chemicals  that can diminish unwanted fungi

Why Lespedeza cuneata? 

• Invasive that competes with native plants and damages biodiversity within plant and animal communities
• Alters soil microbiome
• Expansive seed bank and deep root system
• Understanding its microbiome can help in understanding invasive species success and ecology

Efficacy And Evolutionary Dynamics Of 222 Nm Far-Uvc Against Vibrio Cholerae, Kadicha Madakimova, Angus Wu, Nkrumah Grant

MICRO-CCS student projects

The Far-UVC light at 222 nm wavelength (UV222) is one of the emerging methods of disinfection of bacteria in public spaces such as hospitals and labs.

• Does not penetrate human skin and does not cause harm to eyes making it a safer alternative to conventional UV systems.

• Primarily targets proteins preventing regrowth and repair pathways.

However, the potential for bacterial adaptation following sublethal UV222 exposure remains largely unknown.

Central question: How does QS transcriptional state influence the efficacy and resistance profile of V. cholerae to UV222 nm irradiation?

Hypothesis: Qurom-sensing transcriptional state determines V. cholerae susceptibility to UV222 nm UV …

A Tale Of Two Symbionts: Comparative Cellular Localization Of Two Manipulative Rickettsiella Strains In A Spider, Kaitlyn Costanza, Thea Bliss, Matthew Doremus

MICRO-CCS student projects

Many arthropods harbor maternally transmitted endosymbionts that manipulate host reproduction to increase their transmission. One such manipulation is cytoplasmic incompatibility (CI), in which embryos produced by infected males and uninfected females fail to develop.

Rickettsiella has recently been discovered to cause CI in Mermessus fradeorum. Two geographically distinct Rickettsiella strains infect this spider: R1 causes strong CI, whereas R2 causes weaker CI.

Hypothesis: H1: Both Rickettsiella strains will localize within or near developing sperm cells in the testes. H2: The stronger R1 strain will exhibit more consistent localization within infected adult reproductive tissues than the weaker R2 strain.

The Gravity Of The Ukraine War: Measuring Conflict Impacts On European Grain Trade, Stefan Bonchis

Graduate Theses and Dissertations

This thesis investigates the heterogeneous structural disruptions caused by the war in Ukraine on the European Union’s agricultural trade architecture, focusing on three critical commodities: wheat, maize, and sunflower seeds. Employing a structural gravity model framework across all 27 EU Member States, the study evaluates two conflict episodes, the 2014 Crimea annexation and the 2022 full-scale invasion, to identify the net beneficiaries and heavily impacted nations within the EU agricultural trade network. The empirical strategy utilizes a dual-test design to capture the full scope of the disruption. Test A (Ukraine towards the EU trade) reveals a distinct geographic logic in …

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 …

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 …

Pearson Syndrome: Expanding The Clinical Spectrum Of A Mitochondrial Cytopathy-A Case Report, Alizah Faisal, Hooria Waqas, Hania Masood, Armeen Butt, Saad Rahman, Muhammad Sheraz Hameed, Syed Rafay Hussain Zaidi, Ali Iqbal, Muhammad Usama Naveed

Department of Medicine Faculty Papers

BACKGROUND: Pearson syndrome (PS) is a rare multisystem mitochondrial disorder characterized by single large-scale mitochondrial DNA deletions (SLSMDs). It typically presents in infancy with refractory sideroblastic anemia, exocrine pancreatic insufficiency, and failure to thrive. Due to its heterogeneous manifestations and resemblance to other hematological conditions, early diagnosis remains a clinical challenge.

CASE PRESENTATION: A south asian male infant presented with persistent pancytopenia, severe anemia unresponsive to intravenous and oral iron and multivitamin supplements, exocrine pancreatic insufficiency, failure to thrive, and metabolic acidosis. Born to consanguineous parents, the child had a significant family history of early infant deaths and hematological abnormalities. …

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 …

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.

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, …

Vegf-A Mediates Red Light-Induced Enos Expression In Human Microvascular Endothelial Cells, Iman Zuberi, Helen Brown, Nicole Lohr

Expo Student Presentations

2026 Summer Expo Poster Presentation

• Biological & Life Sciences

Evaluating The Impact Of Region, Vintage, And Carbon Dioxide-Based Winemaking Techniques On Wine Quality Of Mediterranean Varietals, Coleman R. Imrisek

Master's Theses

Changing Vitis vinifera ripening patterns as a result of increasing climate variability has provided challenges against the production of wines with a balanced sensory profile, with adequate acidity, color, aroma, and texture. This thesis aimed to evaluate the ripening patterns and wine profiles of potentially climate-adaptive Mediterranean varietals in two different California Central Coast climates. Additionally, different carbon-dioxide based winemaking techniques were also assessed. Viognier and Grenache Noir grapes were sourced from the warmer, diurnal Paso Robles AVA and the cooler, marine Santa Maria AVA during the 2024 and 2025 growing seasons, with Syrah and Grenache Blanc grapes being only …

Farm Workers And The Structural Basis Of Climate Change Perceptions, Cody Mortell, Anna Erwin, Zhao Ma, Dongkyu Kim, Elizabeth Rodriquez, Marla Perez-Lugo

School of Earth, Environmental, & Marine Sciences Faculty Publications

Farm workers are particularly vulnerable to climate change, especially from extreme heat; however, little is known about how they perceive this risk. This study examines climate change perceptions (CCP) among 404 farm workers surveyed in person in the Lower Rio Grande Valley, Texas from April to May 2024. Guided by Pierre Bourdieu’s theory of practice, we conducted a latent class analysis of economic, cultural, social, and symbolic capital indicators to identify distinct class profiles. We then assessed CCP by latent profile, using two primary outcome variables: (1) perceived temperature trends in the region (assessed alongside NOAA data) and (2) perceived …

An Emergent Seafood Nationalism Takes Hold In The United States, Owen Temby

School of Earth, Environmental, & Marine Sciences Faculty Publications

This paper introduces the concept of ‘seafood nationalism’ to describe how, since 2024–2025, the United States increasingly uses tariffs, trade remedies, food safety enforcement and origin-based rules to favour American seafood over foreign products. Federal actions include Executive Order 14276, Restoring American Seafood Competitiveness, which directs agencies to address unfair trade practices, unsafe imports and to develop a coordinated seafood trade strategy. Additional measures include a tariff package imposing a 10% duty on nearly all seafood imports and 30% on seafood from China, as well as new anti-dumping and countervailing duty orders on warm-water shrimp. This paper presents Gulf …

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.