Life Sciences Commons^™

Implications Of Acetylation And Phosphorylation On Metabolic Enzymes, Nour Fatema

Graduate Theses and Dissertations

All living things depend on glycolysis and the TCA cycle for energy production and metabolic control. Post-translational modifications (PTMs) such as acetylation and phosphorylation, which can change enzyme activity, substrate binding, and overall metabolic balance, tightly regulate these pathways. Diseases like cancer and metabolic problems are associated with disruptions in these alterations.

Serine phosphorylation and lysine acetylation are two of the many PTMs that are evolutionarily conserved processes that alter protein function. Previously thought to be a static histone alteration, acetylation is now understood to be a dynamic regulator of metabolic enzymes that modifies contacts, charge, and conformation. In response …

Comparisons Between Traditional And Gluten-Free Cookies In Sensory Attributes, Acceptance, And Evoked Emotions, Eniola Ola

Graduate Theses and Dissertations

The rise in food allergies and intolerances, notably conditions like Celiac disease, as well as a general shift of consumers to a more health-conscious lifestyle has significantly increased the demand for gluten-free products. Consumers increasingly seek gluten-free products, yet these alternatives often face challenges in replicating the sensory qualities of traditional gluten-containing foods. This study explores the sensory attributes, emotional responses, and labeling impacts on consumer perception of gluten-free and gluten-containing cookies. The main objective of this thesis was to address the gap in research on sensory evaluation of gluten free foods, specifically in terms of commercially available products. The …

Computational Framework For Integrating Single Nucleotide Variant Scores To Identify Novel Genes In Cancers, Amanda Maria Bataycan

Open Access Theses & Dissertations

A quantitative integrated scoring function, iQ(G) was developed to assess the cumulative effects of nonsynonymous single nucleotide variants (SNVs) on the protein-coding genes with the goal to find novel candidate cancer-related genes from patients with acute myeloid leukemia (AML), acute lymphoblastic leukemia (ALL), and ovarian cancer (OC). With Genomic Data Commons as primary data resource for this project, whole-exome SNV data were extracted on patients with one of these three cancers. For each specific cancer, the iQ(G) function sums up the deleterious effects of individual SNVs with respect to the transcripts of the gene G in which they occur, weighted …

Sustainable Agriculture Through Data-Driven Land And Soil Management For Rural Farming Communities, Peggy Clareece Discenza

Open Access Theses & Dissertations

This thesis aims to investigate sustainable farming practices by utilizing a database containing soil, weather, and water data. Additionally, it evaluates cropping strategies using a system that incorporates nutrient dynamics and environmental values. The objective is to monitor, develop predictive models, and assess the impact of both controlled and uncontrolled nutrient variables. This is achieved through the development of an algorithm that provides information on soil health based on datasets and land use, with a particular focus on residual values after harvesting for deeper analytical insights and interpretation. This study focuses on key nutrients, including pH levels, water availability, and …

Development Of A Behavioral Paradigm To Monitor Seizure Susceptibility And Severity In A Zebrafish Model Of Cblx Syndrome, Claudia Berenice Gil

Open Access Theses & Dissertations

Methylmalonic acidemia and homocysteinemia cblX type (cblX) (MIM#309541) is a rare, X-linked recessive disorder caused by a mutation in the HCFC1 gene. This disorder is characterized by multiple congenital anomalies which include intellectual disability, brain malformations, intractable epilepsy, microcephaly, and facial dysmorphia. The most severe symptom of cblX is intractable epilepsy which is 100% penetrant. Our lab developed a zebrafish model with a mutation in the zebrafish hcfc1a ortholog to study the mechanisms underlying seizure phenotypes in cblX. Our laboratory previously showed that mutation of hcfc1a results in increased number and proliferation of neural precursor cells (NPCs) and an increase …

Intratumoral Fibrin As A Novel Immunomodulatory Factor In Pancreatic Ductal Adenocarcinoma, Mazharul Karim

Open Access Theses & Dissertations

In-situ coagulation is a common clinical feature of pancreatic ductal adenocarcinoma (PDAC) that presents a highly thrombotic and crosslinked insoluble fibrin (x-fibrin)-laden tumor stroma (FibTS). However, the specific impact of FibTS on immune cells behavior remains largely unexplored in this poorly infiltrated tumor. We aimed to elucidate how FibTS in PDAC regulates immune cell infiltration, polarization, and crosstalk that favors immunosuppressive microenvironment and tumor growth. We characterized human PDAC tissues by multiplex immunostaining and checked the spatial distribution of immune cells based on the presence of x-fibrin. We investigated how FibTS influences the infiltration of tumor-associated macrophage (TAM) and T-cell …

From Land To Lagoon: The Spatiotemporal Biogeochemical Dynamics Of Arctic Coastal Erosion In Elson Lagoon, Alaska, Sasha Victoria Peterson

Open Access Theses & Dissertations

TThe Arctic is warming rapidly, driving widespread environmental change across coastal landscapes, including permafrost thaw, shoreline erosion, and shifts in sediment and carbon dynamics, pose growing challenges for predicting carbon cycling and climate feedbacks. This dissertation investigates the spatiotemporal variability of erosion, decomposition, and nearshore turbidity in Elson Lagoon, Alaska (1955–2023), to better understand how carbon, nitrogen, and sediment are mobilized, transformed, and potentially emitted as greenhouse gases in Arctic coastal systems. Chapter 2 presents a high-resolution analysis of shoreline change and erosion-driven material fluxes spanning nearly seven decades. Drawing on 795 soil data points, airborne LiDAR, and five shoreline …

Jak1 V658f Drives Oncogenic Transformation Via Transcriptional Reprogramming Independent Of Y598 Phosphorylation And Canonical Jak-Stat Signaling, Omar Javier Rodriguez Moncivais

Open Access Theses & Dissertations

T-cell acute lymphoblastic leukemia (T-ALL) is an aggressive and complex malignancy that accounts for 15% of pediatric acute lymphoblastic leukemia (ALL) cases in the United States. Tyrosine kinases control critical cellular processes, including the development, survival, and activation of T cells, and are established drivers of leukemia.Tyrosine kinases involved in hematological disorders include receptor tyrosine kinases and non-receptor tyrosine kinases family members such as SRC, ABL, FAK, and Janus kinases (JAKs). This study primarily focused on JAK1 gain-of-function (GoF) mutations. These mutations are recognized as hyperactivating mutations, maintaining kinase activity of JAKs on and essentially keeping downstream signaling effectors, like …

The Bullied Prairie Vole: Modeling Depression And Anxiety Through Social Defeat Stress, Minerva Rodriguez

Open Access Theses & Dissertations

Stress-induced illnesses, such as major depression and anxiety, are significant global causes of disability. This highlights the need for reliable animal models that accurately mimic social stress-induced maladaptations, thus, allowing the experimental study of the etiology of such disorders. Prairie voles (Microtus ochrogaster), known for their human-like bi-parental behavior and monogamous partner preferences, are a relevant model for the study of stress-induced psychopathologies. For this reason, in this dissertation, I examined whether exposing voles to the social defeat stress (SDS) paradigm, an experimental approach that captures bullying behavior, would result in both depression and anxiety-related profiles. To do this, experimental …

"Until There Is Nothing Left:" The Environmental And Social Impact Of Extractivist Industries In Grant County, New Mexico 1852-1999, Benjamin Shultz

Open Access Theses & Dissertations

This dissertation research expands and deepens our understanding of the environmental and social impact of the extractivist industries in Grant County, New Mexico, from 1852 to 1999. Much of the scholarship around mining in the historiography tends to focus on Arizona and Northern New Mexico, given the centralization of the mining industry in places like Taos and Santa Fe. The impact of the mining industry on the unique ecosystem and people who resided in Grant County, New Mexico, has not been as thoroughly researched by scholars. Thus, this dissertation extends the literature by revealing how the extractivist industries permanently changed …

Natural Killer T Cell-Mediated Control Of Francisella Tularensis-Induced Cytokine Storm Syndrome, Cameron M. Torres

Open Access Theses & Dissertations

Inflammation is critical for the effective clearance of viral and bacterial challenges, while simultaneously a mechanism utilized by many highly infectious pathogens to cause disease. The bacterium Francisella tularensis, the causative agent of human tularemia, elicits a cytokine storm, wherein the immune system over-responds to the presence of the bacterium causing a dysregulated release of proinflammatory and regulatory cytokines. Without treatment, tularemia mortality can be as high as 30%, with inhalation of as few as 10 CFUs inducing respiratory tularemia. Natural Killer T (NKT) cells are innate-like T lymphocytes with a diverse array of regulatory functions. Unlike conventional T cells, …

Effects Of Plant Growth-Promoting Microorganisms On Microbial Community Dynamics And Plant Growth Responses Of Aeroponically Cultivated Spinach, Veronica Snow

All NMU Master's Theses

Regional food insecurity caused by the inability to use conventional farming techniques year-round in cold climates increases the need for access to quality, locally sourced, and affordable foods year-round. Shifting from a soil-based system to aeroponics can increase yields, as aeroponic systems are not weather-reliant and can operate year-round. Aeroponics, a subgroup of hydroponics, induces growth by misting nutrient-rich solutions onto the plant roots. These systems use space and water more efficiently and rely less on fertilizers and pesticides but are vulnerable to errors in nutrient application, power loss, and rapid pathogen spread. Adding Vermicompost (VCT) and plant growth-promoting microorganisms …

Minimizing Secondary Spinal Cord Injuries With Hypertonic Saline., Francisco A. Cortez-Thomas

Master of Engineering Theses

Spinal cord injury (SCI) disrupts white matter, causing periaxonal swelling, axonal degeneration, and impaired function. To examine vascular edema’s role, we developed a 3Dprinted dual-compartment imaging chamber to mimic and manipulate interstitial and vascular fluid dynamics in real time. We hypothesized that hypertonic saline (HTS) in the "vascular" chamber would osmotically shift fluid from the periaxonal space and preserve myelinated fibers after SCI. Using two-photon excitation microscopy, we imaged myelin and axons ex vivo in Thy1^YFP+ transgenic mice following C5 contusive SCI and assessed three clinically relevant HTS concentrations versus normal saline for their effectiveness in mitigating periaxonal swelling …

Investigation Of Immune/Performance Trade-Offs In Neonate Children's Pythons (Antaresia Childreni), Ellie Hartman

Undergraduate Honors Capstone Projects

Energetic costs and constraints are key considerations when analyzing an organism’s life history and may require trade-offs to be made between different life history traits. One of these trade-offs occurs between investment in immunity and performance. The purpose of this study is to discover if this trade-off influences behavior in neonate Children’s pythons (Antaresia childreni). We hypothesize that snakes undergoing an immune response will have reduced behaviors promoting survival. To test this hypothesis, neonate Children’s pythons were randomly assigned to receive an immune challenge of keyhole limpet hemocyanin (KLH) or a vehicle injection as a control. Two days …

Adaptation Of Influenza A Virus Strains A/Anhui/1/2013 (H7n9) And A/Shanghai/1/2013 (H7n9) For Development Of Effective Mouse Models, Spencer T. Mullen

Undergraduate Honors Capstone Projects

The emergence of avian Influenza A (H7N9) virus strains in humans poses a significant threat to human health globally due to their pandemic potential, limited human immunity, and lack of virus-specific interventions. This capstone aims to address some of the limitations in antiviral research regarding Influenza A H7N9 virus by adapting two low-pathogenic virus strains A/Anhui/1/2013 (H7N9) and A/Shanghai/1/2013 (H7N9) to BALB/c mice through sequential passaging through lung tissue. Following 12 serial passages, increased virulence was observed as evidenced by increased virus replication, increased weight loss, and increased mortality in infected mice. Titration of the initial non-adapted virus isolates were …

Survey Of Insect Pests On Cut Flowers In Utah, Elliot Roberts

Undergraduate Honors Capstone Projects

Cut flower production is a relatively new industry in the state of Utah, gaining momentum by 2020. However, little research concerning management of the crops and their pests has been conducted. One issue producers face are insects that harm the plants in ways such as feeding damage and transmission of diseases. Currently, it is unknown which insects target different species of cut flowers in Utah. Morphological identification of genera and species is often difficult or impossible because of the small size of many of the insects and minute differences between species. This project uses PCR and DNA sequencing to identify …

Creating A Stat2 Knock-Out Rat With Crispr/Cas9 Using I-Gonad, Isabella Dejesus

Undergraduate Honors Capstone Projects

Through the use of genetically modified animals, a more holistic understanding of physiologic responses to various diseases and pathologies can be obtained^7,19. The STAT2 gene encodes a protein called Signal Transducer and Activator of Transcription 2 and is an excellent target for genetic manipulation due to its essential role in type I and III interferon signaling pathways¹¹. A member of the STAT family of transcription factors, this protein is directly involved in mediating cellular responses to various cytokines and growth factors, particularly those related to the innate immune response¹¹. While the STAT2 signaling pathway …

A Neuroimmune Circuit Mediates Chemo Brain Pathology, Daniel Ahmadi

McKelvey School of Engineering Graduate Student Theses & Dissertations

Chemotherapeutic agents, while effective in targeting malignant tumors, often reduce the patients’ quality of life by inducing fatigue, pain, and motivational deficits. These symptoms are collectively referred to as “chemo brain.” The mechanisms underlying these adverse effects, and specifically whether fatigue and motivational impairments share a common etiology, remain poorly understood. The neural–immune substrates of these symptoms remain obscure, in part because standard preclinical regimens either bypass key systemic signals or introduce local toxicity confounds. Here, I establish and validate a three‑day, low‑dose intravenous cisplatin protocol that avoids peritoneal inflammation and severe renal injury yet produces robust, reversible fatigue and …

A Qualitative Nmr And Histological Analysis Of Adipocere Formation In Different Aqueous Environments Using Sus Scrofa Models, Mia M. Sorrentino

Student Theses

Adipocere is a wax-like crust that has the potential to form over corpses in moist, humid, and anaerobic environments, preserving them in a process similar to that of mummification. The substance can be identified within 3-6 months postmortem and is characterized by the ratio of saturated fatty acids to unsaturated fatty acids. Palmitic acid and stearic acid are the most abundant in comparison to myristic and oleic acids. The goal of this study was to investigate factors affecting adipocere formation in different aqueous environments. Pork belly samples were submerged in water samples collected from different places around New York City …

Ndp 54 V1 - National Diagnostic Protocol For Meadow Spittlebug (Philaenus Spumarius), Melinda Moir

Biosecurity research reports

National Diagnostic Protocols (NDPs) are diagnostic protocols for the unambiguous taxonomic identification of plant pests. NDPs:

• are a verified information resource for plant health diagnosticians
• are consistent with ISPM No. 27 – Diagnostic Protocols for Regulated Pests
• provide a nationally consistent approach to the identification of plant pests enabling transparency when comparing diagnostic results between laboratories; and,
• are endorsed by regulatory jurisdictions for use (either within their own facilities or when commissioning from others) in a pest incursion.

Where an International Plant Protection Convention (IPPC) diagnostic protocol exists it should be used in preference to NDPs, unless it is shown …

Serological Evaluation For Leptospirosis On Samples Received By The Connecticut Veterinary Medical Diagnostic Laboratory (Cvmdl), Hayden R. Samuels

Honors Scholar Theses

Leptospirosis is a globally distributed zoonotic disease caused by pathogenic species of Leptospira, motile spirochetes capable of infecting humans and animals. Transmission typically occurs through contact with water or soil contaminated by the urine of reservoirs or infected animals. Although leptospirosis is considered a neglected tropical disease, its geographic range is expanding due to climate change and urbanization. Surveillance remains limited in many regions, especially in the United States. This study aimed to assess the seroprevalence and serovar diversity of Leptospira exposure in a variety of domestic and wild animals submitted to the Connecticut Veterinary Medical Diagnostic Laboratory (CVMDL). …

Mechanistic Investigation Of Ring-Opening Polymerization Of Polycaprolactone Using Tin(Ii) Catalysts: Ligand Effects And Biomedical Applications, Eva-Larue M. Barber

Honors Scholar Theses

This research explores the mechanistic aspects of ring-opening polymerization (ROP) of ε-caprolactone (CL) to produce polycaprolactone (PCL), a biodegradable polymer widely used in biomedical applications. The study investigates how light exposure and catalyst concentration influence polymerization efficiency, using tin(II) 2-ethylhexanoate [Sn(Oct)₂] as the catalyst in a non-polar toluene solvent at 90 °C. Reactions were conducted under either ambient light or black light bulb (BLB) illumination, with monomer-to-catalyst ratios of 1:1 and 200:1.

Proton nuclear magnetic resonance (¹H NMR) spectroscopy was used to analyze conversion efficiency by tracking the disappearance of monomer signals and appearance of characteristic PCL peaks. Results revealed …

Latitudinal Gradients In Arctic Willows And Their Effects On Stream-Riparian Systems, Donal Heaney

Honors Scholar Theses

Extreme warming in the Arctic due to climate change presents the opportunity to study rapid changes to ecosystems and their potential resilience. Willow (Salix) shrubs form the base of many Arctic riparian ecosystems, and they have increased in height and range as temperatures have warmed. The effects of warming on willows could alter riparian ecosystems and neighboring streams, so understanding how climate change will affect willows is integral to understanding how the stream-riparian meta-ecosystem might change. I used data from the EvoME Institute to compare willow canopy cover above Arctic streams along a latitudinal transect and investigate how …

Advancing Marine Animal Movement Studies Using An Open Innovation Framework, Jacob Levenson

Graduate Doctoral Dissertations

This dissertation investigates the application of open innovation to migratory marine animal movement studies, addressing critical challenges in understanding, managing and ultimately conserving highly mobile and migratory species (HMMS). The species examined herein, including manta rays, sea turtles, and marine mammals, face threats including habitat disruption and behavioral changes to adapt to anthropogenic stressors. Traditional monitoring techniques, while valuable, are often costly, limited in scale, and protected by proprietary intellectual property, all of which decrease accessibility. Ambitious conservation goals, such as protecting 30% of the ocean by 2030, require more data that are indubitably sharable and thus will need to …

Developing A Small Molecule To Inhibit Hsf1 Expression In Cancer And Evaluating Natural Genetic Variation In Small Molecule Toxicity., Michaela Kendal Foley

Theses and Dissertations

Each year cancer affects nearly 20 million people worldwide and genetic differences across populations can impact cancer onset and progression. Specifically, tumors with high levels of HSF1, the master regulator of the cytoprotective heat shock response (HSR), are correlated with poor patient outcomes in multiple cancers such as prostate, breast, and melanoma. Subsequently, the development of pharmacological inhibitors of HSF1 represents a promising strategy for anticancer therapeutics. Using a luciferase-based transcriptional reporter, two small molecule libraries were screened for inhibitors of HSF1 expression in human embryonic kidney cells, yielding ten compounds that decrease HSF1 expression. To identify if cancer lines …

Cover Crop-Induced Improvements To Soil Hydraulic Properties And The Role Of Termination Time In Mitigating Negative Soil Moisture Impacts, Fabrizio Javier Pilco

Theses and Dissertations

In the Lower Rio Grande Valley of South Texas, water scarcity and drought pose ongoing challenges for farmers. Although cover crops are promoted for improving soil health and moisture, their effects on soil hydraulic properties in this region remain understudied. This thesis addresses both long-term (Chapter 2) and short-term (Chapter 3) impacts of cover crops on soil hydraulic properties and soil moisture. Long-term effects were evaluated through a three-year participatory field trial across four farms using a BACI design, while short terms were evaluated using a complete randomized block design. Soil hydraulic properties (residual water content θr, saturated water content …

Drug-Target Binding Affinity Prediction With Graph-Based Models: The Impact Of 3d Structural Information, Angel Antonio Peredo

Theses and Dissertations

Drug–target affinity (DTA) prediction is a critical step in accelerating drug discovery and reducing its associated costs. Existing computational approaches often employ one-dimensional protein sequences or two-dimensional molecular graphs, which can overlook important three-dimensional (3D) structural features. The present study investigates whether incorporating 3D information of both proteins and ligands can yield more meaningful representations for binding affinity prediction. Specifically, Graph Transformers (GT) are utilized, and the integration of Equivariant Graph Neural Networks (EGNN) is explored to preserve and leverage spatial information during learning.

Using the CrossDocked2020 dataset, which provides protein structures in Protein Data Bank (PDB) format, proteins and …

Identification Of Cadmium As A Structural And Functional Modulator Of Psd-95 Regulating Nmdars At Postsynaptic Membranes, Claudia Garza

Theses and Dissertations

Postsynaptic density-95 (PSD-95) is an essential scaffolding protein in excitatory neurons. PSD-95’s N-terminal palmitoylation region elicits synaptic plasticity by targeting, anchoring, and trafficking glutamate receptors, such as N-methyl-d-aspartate receptors (NMDAR), to the postsynaptic membrane. The molecular interactions of PSD-95 and its dysregulation in excitatory synapses are currently being explored as primary causes of neurodegenerative diseases and disorders, such as Alzheimer’s disease, Schizophrenia, and Parkinson’s disease. Recent studies demonstrate an overaccumulation of zinc at two cysteines (C3 and C5) and two histidines (H24 and H28) of PSD-95 blocks palmitoylation, causing a loss of NMDAR at the postsynaptic membrane. In addition, exposure …

Emotional Outbursts In Latinx Autistic Youth With Intact Or Non-Intact Families; Frequency, Severity, And Socio-Demographic Correlates, Sandra Lucia Masso Hernandez

Theses and Dissertations

Autism Spectrum Disorder (ASD) is a neurodevelopmental disorder characterized by impaired social interaction, communication, and restricted repetitive behaviors. One of the core difficulties in individuals with ASD is related to emotional outbursts. Emotional outbursts (EO) are behavioral episodes in response to situations, environmental and physiological stimuli that occur in an extreme, unpleasant, sometimes aggressive way, often disproportionate to the context. Considering the impacts that EO’s can cause in populations with neurodevelopmental disorders and on the well-being and mental health of parents/caregivers, the need arises to evaluate these populations. Due to the core characteristics of ASD (such as a rigid mentality, …

Climate Resilience In Texas Assessing The Impact Of Extreme Weather On Energy Poverty And The Mitigating Role Of Tree Canopy Coverage, Yongwen Yang

Theses and Dissertations

Extreme weather events, including severe heat and cold waves —increasingly threaten public health, economic stability, and energy equity. This two-part study examines the interplay between extreme weather, energy poverty, and green infrastructure (tree canopy coverage) in Texas, a state characterized by climatic extremes and socioeconomic diversity.

This study consists of four chapters. The first chapter in the Introduction includes the research background, existing research, research gaps, research questions, and potential contributions. Followed by two core chapters. Chapter II aims to assess the impact of extreme weather on energy poverty at the household level. Chapter III aims to identify whether tree …