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(R2107) Analysis Of A Bivalent Vaccine Model With Peer Influence Effect On Testing, Manoj Kumar Singh, Anjali .

Applications and Applied Mathematics: An International Journal (AAM)

The coronavirus caused havoc around the world. There was a terrible situation in villages and cities, and no one knew how to deal with it. Although the governments of each country tried their best to save the common people, vaccination programs and testing centers were built everywhere. However, people were not utilizing it due to fear. Because of this, the infection spread rapidly. The qualitative study of the mathematical model here is in context with the situation when bivalent vaccination and testing are available for an epidemic. The mathematical model combines the exposed period and influenza model with vaccination included …

Global Estimates Of Seagrass Blue Carbon Stocks In Biomass And Net Primary Production, Enric Gomis, Simone Strydom, Nicole R. Foster, Diana Montemayor, Miguel A. Mateo, Eduard Serrano, Karina Inostroza, Roisin Mccallum, Anna Lafratta, Chanelle L. Webster, Caitlyn L. O’Dea, Nicole E. Said, Natasha Dunham, Rachele Bernasconi, Axel Werner, Federico Vitelli, Viena Puigcorbé, Alexandra D’Cruz, Cristian Salinas, Kathryn M. Mcmahon, Glenn A. Hyndes, Paul S. Lavery, Albert Pessarodona, Carlose M. Duarte, Oscar Serrano

Research outputs 2022 to 2026

Seagrass meadows play a key role in the global carbon cycle through storing carbon in their biomass and soils. However, the lack of global assessments of carbon stocks in seagrass biomass and net primary production (NPP) limits our understanding of their role in the carbon cycle. Here, we provide global estimates of biomass carbon stocks and NPP encompassing seagrasses with different life-history strategies, across bioregions and 66 countries. Seagrass meadows show up to 800-fold differences in biomass across different life-history strategies and bioregions (mean ± SE; 1551 ± 40 kg C ha⁻¹), whereas seagrass NPP (5833 ± 557 …

Transcription Factors And Regulatory Proteins In The Control Of Eukaryotic Gene Expression, Maya M. Minkara

Honors Theses

Transcription factors (TFs) function as precision switches that integrate signaling inputs, chromatin state, and protein homeostasis to control gene expression. This thesis unites three interconnected research themes: (1) mechanistic studies of the ubiquitin-proteasome system (UPS) in regulating eukaryotic TFs, focusing on polymerase-associated Factor 1 (Paf1) and TATA-box binding protein-associated factor 2 (Taf2); (2) identification of biomarker genes within odor-related TF networks; and (3) integration of published undergraduate research linking molecular regulation, bioinformatics, and synthetic biology. These themes are purposefully structured so that mechanistic insight into TF control sets up network-level discovery and, in turn, motivates applied and translational directions. In …

Avaren-Fc's Effects On Lymphoma Cells., Jacob Hahn

Electronic Theses and Dissertations

This thesis investigates the therapeutic potential of Avaren-Fc (AvFc), a novel lectin fusion protein that integrates the Fc region of human IgG1 with the engineered lectin Avaren, specifically targeting lymphoma. The study delineates the in vitro binding capabilities of Avaren-Fc with a human B-cell lymphoma cell line, a canine B-cell lymphoma cell line, healthy canine peripheral blood mononuclear cells (PBMCs), and healthy human PBMCs. AvFc was shown to exhibit significant binding to human lymphoma cells. Furthermore, the direct cytotoxicity of Avaren-Fc against canine lymphoma cells, canine lymphoma cells and healthy canine PBMCs was assessed. It was found that there is …

Enzymatic Depletion Of Adenosine To Potentiate Cancer Immunotherapy., Omar Sadi Sarkar

Electronic Theses and Dissertations

Immune checkpoint blockade (ICB) therapies have revolutionized cancer treatment, but many patients still do not respond well. To improve therapeutic outcomes, chemotherapy is often combined with immunotherapy, as chemotherapy is known to promote immunogenicity. However, many patients develop resistance to this combination therapy, and the reasons behind it are not fully understood. In this study, we explored how platinum-based chemotherapy, specifically cisplatin, affects tumor signaling to create an immunosuppressive tumor microenvironment (TME). We found cisplatin triggers ataxia telangiectasia mutated (ATM)-mediated DNA damage signaling and induces higher expression of prostaglandin E₂ (PGE₂) via a cyclooxygenase-2 (COX-2) mediated pathway. We speculate DNA …

Examing Fear Conditioning/Extinction And The Role Of The Amygdala In Human Neuroimaging., Olivia Cook

Electronic Theses and Dissertations

Fear plays a crucial role in survival but can lead to psychological disorders when dysregulated. Fears can be innate due to evolutionary relevance or learned through associative processes, where predictive accuracy of threat is pivotal. Disruptions in fear neurocircuitry contribute to anxiety disorders, characterized by heightened activation and impaired learning. Fear conditioning and extinction paradigms based on classical Pavlovian conditioning have been used to study mechanisms underlying fear learning. Using this experimental model, fear networks in rodents have been described in detail with clear distinction between conditioning and extinction neural functioning. Yet, there is no consensus on the neurobiological processes …

Characterizing The Ethanol Sensitivity Of The Planar Cell Polarity Pathway In Endoderm Morphogenesis And Jaw Development., Raéden Omneil C. C. Rolle Gray

Electronic Theses and Dissertations

Fetal Alcohol Spectrum Disorders (FASD) describes a large range of developmental defects due to prenatal alcohol exposure. It is characterized by neural and facial defects, including jaw hypoplasia. Many factors contribute to the susceptibility of ethanol-induced facial defects, including genetics, yet the genes involved, and the cell events they regulate, are poorly understood. Zebrafish have a large number of tools for genetic manipulation available, share 70% of genes with humans, are fertilized externally and are translucent during embryogenesis, making them great models to study FASD. Previous studies show that two members of the Planar Cell Polarity (PCP) pathway, zebrafish vangl2 …

The Ecology Of Arthropod Rain In A Tropical Forest., Andrew Robert Seiler

Electronic Theses and Dissertations

Tropical forests are structured by complex vertical linkages and nutrient exchanges between canopy and understory habitats. These linkages include the downward flux of organisms, the movement of canopy fauna, and the recycling of nutrients through litter and organic matter deposition. This dissertation investigates arthropod rain and its role in connecting the canopy and forest floor processes in a lowland tropical forest in Panama. Chapter 2 quantifies “arthropod rain”, the fall of canopy arthropods into the understory. Using pan and pole traps, I measured the composition, abundance, and biomass of arthropods falling from the canopy and assessed environmental drivers of the …

Structure And Function Studies On Trna Splicing Endonuclease, Justin G. Underwood

Dissertations and Theses (Open Access)

A subset of eukaryotic pre-tRNAs have introns that must be spliced out to become mature molecules capable of functioning in translation. This essential processing step is performed by tRNA splicing endonuclease (TSEN), a highly conserved heterotetramer with two catalytic and two structural subunits. In addition to this conserved function, archaeal TSEN also processes pre-rRNA and yeast TSEN cleaves some mRNAs that encode mitochondrial proteins to initiate mRNA degradation. Interestingly, single amino acid mutations in TSEN cause the human Mendelian disease pontocerebellar hypoplasia (PCH) by an unknown mechanism. Recently, several groups have determined the structure of human TSEN, revealing similarities and …

Host-Intrinsic Factors Determine Anti-Tumor Efficacy Of Exercise In Pancreatic Ductal Adenocarcinoma, Sumedha Pareek

Dissertations and Theses (Open Access)

Pancreatic Ductal Adenocarcinoma (PDAC) is the third leading cause of cancer-related deaths with a low 5-year relative survival rate of approximately 13.3% for all stages combined. We have previously shown that exercise can improve quality of life and enhance functional capacity among patients with PDAC. Exercise induces a variety of changes in the tumor microenvironment with beneficial effects in several tumor types. However, our understanding of the clinical effects of exercise and the mechanisms that mediate anti-tumor effects are limited in pancreatic cancer.

In this project, using C57BL/6 mice from Taconic Biosciences (Tac) and Jackson Laboratories (Jax), we established a …

Nutrient Utilization Efficiency And Antioxidant Profile Of Bc2 Abaca (Musa Textilis Née) Hybrids, Roberto Barba Jr, Antonio Lalusin

The Philippine Agricultural Scientist

Abaca (Musa textilis Née) is an important fiber crop widely recognized for its superior tensile strength, yet its productivity remains constrained by nutrient inefficiency, poor cropping management, and climatic stresses under manual production systems. Efficient nutrient utilization and an understanding of antioxidant compositions are practically relevant to the productivity of the abaca fiber crop. However, despite the crop’s economic importance, limited studies have examined nutrient uptake dynamics and internal utilization efficiency related to fiber synthesis. This study aimed to demonstrate the nutrient utilization efficiency and antioxidant profiles of BC₂ abaca hybrids in relation to fiber yield and quality. Fiber …

Investigating The Cardiovascular And Autonomic Responses To Energy Drink Consumption: The Role Of Energy And Calorie Content, Sophia Schmidt

Honors Theses

Energy drinks (EDs) are among the most consumed functional beverages, often marketed to enhance focus, alertness, and physical performance. Despite their popularity, the combined cardiovascular and autonomic effects of caffeine and sugar during exercise remain poorly understood. The purpose of this study was to examine the acute cardiovascular, metabolic, and autonomic responses to sugar-sweetened (ED-S), non-nutritive sweetened (ED-NNS), and placebo beverages during submaximal cycling in healthy young males.

Nine male participants (age 22.2 ± 2.4 yrs; BMI 26.2 ± 2.9 kg/m²) completed three experimental visits in a randomized, repeated-measures design. Each visit involved ingestion of one drink (ED-S, ED-NNS, or …

Leptinotarsa Texana Schaeffer And Gargaphia Arizonica Drake & Carvalho As Potential Biocontrol Agents For The Noxious Weed Solanum Elaeagnifolium Cav, Samikshya Subedi, Stephanie L. Kasper, Alexis Racelis, Greg Lefoe, Rupesh R. Kariyat

School of Earth, Environmental, & Marine Sciences Faculty Publications

Silverleaf nightshade (Solanum elaeagnifolium Cav.; SLN) is a perennial forb native to the southern United States, Mexico and South America that has become a serious agricultural weed across the world. Biological control has emerged as a significant alternative for the management of (SLN) due to the challenges and high costs associated with chemical and mechanical controls. In this study, we used a combination of field and laboratory studies to (1) explore the fundamental and realized host ranges of two North American insects, Leptinotarsa texana Schaeffer and Gargaphia arizonica Drake & Carvalho and (2) assess their suitability as potential biological …

Prevalence Of Shiga Toxin Producing Escherichia Coli In Illinois Bison Herds, Adam M. Baldocchi

Honors Capstones

Shiga toxin-producing Escherichia coli (STEC) represents an important group of zoonotic pathogens that pose ongoing risks to public health through foodborne outbreaks and environmental transmission. This project evaluated the prevalence and genetic distribution of stx1 and stx2 toxin genes in fecal samples collected from Illinois bison Bison bison) managed under either commercial or preservation conditions. A total of 320 fecal samples were screened for STEC presence by performing enrichment culturing and confirmed by Polymerase Chain Reaction (PCR) for stx1, stx2, and uidA, which confirmed E. coli identity. Of all tested samples, 28.4% were STEC-positive, with stx2 (21.3%) …

Evaluating Metamitron Efficacy For Glyphosate-Resistant Palmer Amaranth (Amaranthus Palmeri) Management In Sugarbeet Across The Central High Plains, Abraham Akuoko

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

Herbicide-resistant (HR) Palmer amaranth (Amaranthus palmeri S. Watson) is regarded as one of the most prominent weeds within sugarbeet fields across the Central High Plains, with limited chemical control options. Although a few herbicides are available, their use is restrictive due to crop injury concerns and can only be applied at or after the 2–4 true leaf (TL) growth stage, which will provide no control for already emerged weeds. However, Palmer amaranth often emerges between sugarbeet planting and the 2 TL sugarbeet growth stage. Consequently, as of 2023, there were no herbicide options to control Palmer amaranth in sugarbeet …

Uncovering The Diversity Of Bats In The Mbam Minkom Massif, Cameroon: Insights Into The Importance Of Tropical Inselbergs, Amanda L. Grunwald, Terrence C. Demos, Patrick J. Atagana, Courtney M. Volk, Ara Monadjem, Franck P. Meyo Konoo, Yvette Ngueagni, R. Travis Merrill, Daniel J. Ballhorn, Luis A. Ruedas, Multiple Additional Authors

Biology Faculty Publications and Presentations

We report the results of two expeditions (2019 and 2022) to the Mbam Minkom Massif (Centre Region, Cameroon), focused on an assessment of the montane area's bat fauna. We describe bat species' richness and highlight the incredible diversity and ecological importance of this highly threatened ecosystem. Across both years, we captured a total of 36 bat species representing 21 genera and six families on Mbam Minkom Massif and in the surrounding lowland forest. Our findings include two new species records for Cameroon, and two additional records of the recently described bat, Pseudoromicia mbamminkom. We provide accounts for all captured species, …

Population Observations And Microhabitat Use Of Isthmohyla Tica (Anura: Hylidae) In San Ramón, Costa Rica, Pablo Marin Pacheco, Jerson Santamaria Martinez, Jose Manuel Mora, Jennifer L. Stynoski, Randall Arguedas

Biology Faculty Publications and Presentations

Isthmohyla tica, the Tica Frog, is a critically endangered species endemic to Costa Rica and supposedly Panama that has only been seen in a few sites in recent decades. To aid in its conservation, we assessed the population status and microhabitat preferences of this frog in a section of the Danta stream at Rancho Alegre farm, San Ramón, Costa Rica. We conducted 18 nocturnal surveys and collected data on perch types, vegetation associations, stream characteristics, and environmental variables for each sighting of the Tica Frog. To identify potential microhabitat preferences, we compared these features between sites with or without frogs …

Characterization Of Mitochondrial Dna Repair Components And Repair Choices At Targeted Double-Strand Breaks In Arabidopsis Thaliana, Moira Rodriguez

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

Plant mitochondrial genomes are complex when compared to most other eukaryotic mitochondrial genomes. They are large and variable in size, expand and rearrange frequently, abundant in non-tandem repeats, but maintain a very low synonymous substitution rate in the remaining coding regions. Many of these complexities can be explained by the increased use of double-strand break repair for DNA damage. To advance the understanding of mitochondrial genome dynamics as it relates to double-strand break repair, we performed a forward genetics screen to identify proteins involved in DNA repair in plant mitochondrial genomes. Through this screen, we identified an RNA/DNA helicase, Suv3, …

Proso Millet In Us High Plains Dryland Agriculture: Systems Resilience, Phenology, And Consumer Preferences For Alternative Grains, Pratiksha Baishya

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

Dryland crop production in Nebraska's semi-arid High Plains faces challenges from fluctuating weather impacts of climate change, including extreme temperatures, short growing seasons, and recurring droughts. Proso millet is an alternative crop used to build a more robust three-year rotation in the region, rather than the traditional two-year wheat-fallow cycle. This dissertation provides a systems-level assessment of proso millet, a climate-resilient crop with great potential to support sustainable cropping systems in the US High Plains. Using a field-to-consumer approach, it highlights its agronomic and environmental advantages in dryland rotations, develops a phenological framework to aid future research on production, crop …

Recovery And Characterization Of Moraxella Species From Bovine Specimens, Laura G. Leger

School of Veterinary and Biomedical Sciences: Dissertations, Theses, and Student Research

The family Moraxellaceae is made up of a diverse group of 24 named species that fall into three phylogenetic groups. While most Moraxella spp. act as commensal respiratory and/or ocular flora of mammals, some are associated with disease. One of these diseases, infectious bovine keratoconjunctivitis (IBK), has significant welfare and economic impacts to both cattle and cattle producers. Moraxella bovis is the only experimentally determined cause of IBK, however, an association of Moraxella bovoculi with disease has been proposed. Currently, available vaccines do not have high levels of efficacy in the field. Culture based methods are the gold standard for …

Pfos And Lung Injury: A Review Of Human And Experimental Evidence, Farzana Hakim

Theses and Dissertations

Human epidemiological research has shown the adverse health consequences of long-term accumulation of per- and polyfluoroalkyl substances (PFAS) in human tissue. Specifically, this review will examine the relationship between PFAS exposure, impaired immune system functioning, and an elevated risk of respiratory disease using both human and experimental data. Research on human populations indicates that children exposed to PFAS have lower levels of antibodies to vaccines; those children prenatally exposed to PFAS are more susceptible to upper respiratory infections; and that adult humans have a higher incidence of chronic obstructive pulmonary disease (COPD). Additionally, experimental studies demonstrate that PFOS and PFOA …

Assessing Native Tallgrass Prairie Species As Main Roadside Vegetation In Arkansas, Sarah Paschal

Graduate Theses and Dissertations

Tallgrass prairies are among the most endangered ecosystems in North America, with Arkansas having lost over 99% of its native grasslands. This research evaluated the potential for using native tallgrass prairie species in Arkansas roadside vegetation. Two field experiments were conducted from 2022 to 2024. The first assessed seven native seed mixtures at three roadside locations (Clarksville, Huntsville, and Newport). Seed mixture composition significantly influenced establishment outcomes, with early-establishing forbs such as black-eyed Susan, partridge pea, and Illinois bundleflower performing well, though establishment varied by location. A second trial compared planting date (Autumn, Winter, Spring) and planting method (broadcast, drill …

Monte Carlo Simulations Of Geometric Deformation Of Harrison-Anderson-Mick Applicators Used In Intraoperative Radiation Therapy, Benjamin Insley, Brett Bocian, Sam Beddar, Reza Reiazi, Patrick James Jensen, Rachael M Martin-Paulpeter, Joshua Scott Niedzielski, David Flint, Gabriel Oliveira Sawakuchi, Luis Augusto Perles

Faculty, Staff and Student Publications

Background: The Harrison-Anderson-Mick (HAM) applicator is a high-dose-rate intraoperative radiotherapy (HDR-IORT) applicator used to position Ir-192 brachytherapy sources over surgically-accessed tumor volumes or post-resection tumor beds. Because of the lack of a 3D imaging system, dwell times are optimized pre-surgery by a TG-43-based treatment planning system (TPS) that assumes a perfectly flat applicator surface surrounded by an infinite water phantom. These assumed conditions are disparate from typical treatment conditions, especially in the pelvic regions, which often involve uneven patient surfaces and superficial irradiations with little to no backscatter material.

Purpose: Develop and validate a Monte Carlo (MC) model of HDR-IORT …

Microplastic Accumulation In A Mixed Species Seagrass Bed In The Tamar Estuary, Torpoint, Cornwall, Uk, Hannah G. Phillips

The Plymouth Student Scientist

Microplastic pollution is a major threat to UK seagrass habitats, which provide essential ecosystem services by supporting biodiversity and economically valuable fish species. Seagrass beds, acting as long-term ‘sinks’ for microplastics due to their dense canopies face a high risk of degradation. This study investigated microplastic accumulation in the sediment of a mixed species (Zostera marina and Nanozostera noltei) seagrass bed in the Tamar Estuary, Southwest England, considering the effect of sediment particle size. Microplastics were extracted by density separation using Sodium Bromide (NaBr) and sediment particle size analysis was used to investigate the seagrass bed sediment. FT-IR …

Effects Of Maternal Hypoxia On Developmental Plasticity, Matilda Powell

The Plymouth Student Scientist

Developmental plasticity enables organisms to adjust phenotypes to environmental cues, yet the transgenerational consequences of maternal effects remain unclear. Hypoxia, intensified by climate change and eutrophication, triggers taxon-specific plastic responses. Daphnia magna exhibits plasticity dependence, making it a critical model species for studying environmental responses. While maternal hypoxia (MH) influences generational plasticity, its long-term impacts on reproductive and physiological traits across generations remain insufficiently explored, limiting predictions of species resilience to environmental change. This study employed a controlled two-generation design: gravid F0 adults were exposed to moderate hypoxia (40% air saturation) or normoxia (100% AS) for 8 days, with reproductive …

All Rivers Reach The Sea: Can We Improve Ocean Conservation Through Improving Public Understanding Of The Connections Between Marine And Terrestrial Systems?, Lauren Hind

The Plymouth Student Scientist

With marine environments facing growing threats and their connections to terrestrial environments often disregarded, understanding public perceptions of these connections is crucial for effective ocean conservation. This study aimed to assess public understanding of the interconnectedness of marine and terrestrial environments and its influence on ocean conservation efforts. To achieve this, two questionnaires (N=560) were distributed among over 18’s (N=301) and under 18’s (N=259) evaluating their knowledge on the connections between marine and terrestrial environments, engagement with conservation and views on education and responsibility. The results indicated a limited understanding and awareness of marine-terrestrial connections, particularly among under 18’s. Current …

What Environmental Circumstances Generate Hazardous Wave Overtopping Conditions For Infrastructure Disruption: Dawlish (United Kingdom) Case Study, Zbigniew Tomasz Zielonka

The Plymouth Student Scientist

Coastal infrastructure faces increasing threats from wave overtopping due to climate change, rising sea levels, and intensifying storms. This research investigates the environmental conditions that drive hazardous wave overtopping using Dawlish, a vulnerable section of the UK’s railway, as a case study. Understanding these conditions is essential for improving knowledge, developing effective mitigation strategies, and enhancing the resilience of shoreline defences against future challenges. Using one-year observations from WireWall instruments, offshore wave buoy, and meteorological data, the research applies a Random Forest model to assess the influence of metocean conditions on overtopping. The results indicate that wave height, tidal level, …

Assessing Overtopping Hazard To The Dawlish Railway Line: Integrating Wave Propagation Models For Coastal Metocean Condition Analysis, Matthew R. Owen

The Plymouth Student Scientist

With rising sea levels and increasingly frequent and intense storms due to climate change, coastal communities and structures are at an increasing risk of overtopping occurring. This study investigates the coastal metocean conditions responsible for overtopping at coastal defences, using Delft3D to model these processes with Dawlish as the case study site. Wave propagation models were employed to simulate metocean conditions from December 2021 to March 2022 to compare inshore wave conditions, alongside water level and wind parameters, with observed overtopping data from the WireWall system installed on top of the seawall, next to the railway line. The results indicate …

From Sea To Shore: Wind-Driven Aerosolization Of Harmful Algal Bloom Toxins In Qingdao, China, During The Winter Of 2019, Madeleine K. Martin

The Plymouth Student Scientist

In Qingdao, China, harmful algal blooms (HABs) are a known hazard to coastal communities. Aerosolization is a mechanism by which HAB toxins can be transported from the sea surface into the air when wind speeds exceed 5 m/s. Previous studies have analysed the composition of aerosolized marine biotoxins (AMBs) in the breathable air surrounding Qingdao, but the role of the onshore winds in transporting them there would benefit from further research. Ciguatoxin is one such AMB, and this study analyses the role of onshore winds in aerosolizing and transporting toxins inland from a ciguatoxin bloom in Aoshan Bay, Qingdao during …

Comparing The Effect Of Marine Aquarium Salts And Sodium Chloride On Vicia Faba Stress Response, Bethany Smerdon

The Plymouth Student Scientist

Soil salinity is a major abiotic stressor limiting agricultural productivity. Many salt stress studies rely solely on sodium chloride (NaCl) solutions, despite not accurately representing natural saline conditions. This study investigated the stress response of Vicia faba to NaCl and marine aquarium salt (MAS) solutions to assess the impact of a more complex ionic composition on plant physiology. Plants were cultivated in a controlled greenhouse and treated with either NaCl, MAS, or rainwater (control) for up to 55 days. Growth parameters, water status, proline accumulation, chlorophyll content, and root nodule weight were measured to evaluate stress responses. The results indicate …