Life Sciences Commons^™

Potentially Cis-Acting Super-Enhancer Long Noncoding Rnas As Biomarkers In Triple Negative Breast Cancer Progression, Kavipriya Kovai Palanivel

Biological Sciences

Triple negative breast cancer (TNBC) is defined by the lack of estrogen receptors (ER), the lack of progesterone receptors (PR), and normal human epidermal growth factor 2 (HER2) protein levels in breast tumors. Therefore, TNBC is an aggressive type of breast cancer due to limited treatment options for patients. Determining genes that regulate the progression of tumors to TNBC may help develop new therapeutic techniques. Many super-enhancer long noncoding RNAs (SElncRNAs) are found to be differentially expressed in cancer cells. Super-enhancer activity heavily influences target gene transcription and is often augmented through cis-acting SE-lncRNA activity. Therefore, we hypothesize cis-acting SE-lncRNAs …

Using The Centrifuge Force Microscope As A Single-Molecule Technique For Studying Base-Stacking Interactions, Kevin Thomas

Biological Sciences

A wide range of single-molecule techniques has streamlined the process of applying and studying the effects of force on individual molecules. The centrifuge force microscope (CFM) is one such technique that allows for high-throughput single-molecule pulling experiments. It is relatively inexpensive and user-friendly, making it a suitable tool to study the effects of force on various biomolecular interactions. A benchtop centrifuge can be used to apply centrifugal force to molecular constructs that are tethered between a glass slide and a microsphere. Molecular events like bond dissociation result in the removal of the microsphere from the surface, which is observed by …

Circadian Modulation Of Astrocyte Morphology And Synaptic Transmission, Saad Ahmad

Biological Sciences

The circadian rhythm affects behavior and physiology in many animal species. Our previous work in mice showed that within the hippocampus, a subordinate circadian oscillator, astrocytes change their proximity to excitatory synapses. Here we obtain 3D reconstructions of biocytin-filled hippocampal astrocytes processed with protein retention expansion microscopy and imaged using two-photon laser scanning microscopy. Our findings identify the subtle changes in astrocyte morphologies that encode information about time-of-day in hippocampal astrocytes. These findings shed light on fundamental mechanisms that allow the function of hippocampal circuits to adapt to different times of the day. This will help us understand how structural …

A Mechanistic Study On The Immunological Effects Of A Novel Anti-Schistosomal Compound, Caleb M. Sandall, Paul H. Davis

Theses/Capstones/Creative Projects

Schistosomiasis is a condition caused by a parasitic worm infection that is one of the primary neglected tropical diseases. It infects approximately 250 million people every year, and it causes the second largest economic impact from any parasitic disease. There exists a treatment for Schistosomiasis; however, it is ineffective against the juvenile stages of the worm. A novel drug has been developed that has been illustrated to have efficacy against all stages of worm infection. However, before this drug can be utilized, its method of action must be determined. Preliminary single cell transcriptomic data from our lab suggests that our …

Anxiety And Immunity: Affecting The Body And The Mind, Katelynn Dobbs

Theses/Capstones/Creative Projects

Speculations have been made within the scientific community that there is a link between the underlying mechanisms that impact anxiety disorders and immune system disorders. While many correlations between these disorders have been observed through various immune system disorder studies, this subject is still severely under-explored. In order to examine the potential relationship between anxiety disorders and immune system disorders, a survey was conducted and distributed among the student population at the University of Nebraska at Omaha. This survey collected data by asking a variety of questions that pertained to anxiety and immune system disorders diagnoses within the student population …

Investigation Of Microbe And Host Tissue Interactions Contributing To The Pathogenesis Of Colorectal Cancer, Ryan Chapman, Dhundy Bastola

Theses/Capstones/Creative Projects

Colorectal cancer (CRC) is one of the leading causes of cancer-related death worldwide. The pathogenesis of this disease can fall under broad categories; however, the specific precursory mechanism of CRC pathogenesis is still unknown. Dysregulations of the gut microbiome have been identified in the CRC tissue environment. Additionally, CRC tissue gene expression has been observed to differ from that of healthy tissue. Despite these noticeable changes, few studies have directly compared the microorganism composition to the gene expression of CRC tissue. Doing so may identify whether the differentially abundant microorganisms influence the changes in gene expression. The goal of this …

Identification Of Synonymous Genes And Pathways Implicated In Irritable Bowel Disease And Pancreatic Duct Adenocarcinoma, Lavanya Uppala

Theses/Capstones/Creative Projects

Better understanding and genetic characterization of the gut microbiome will allow for the identification of clinically distinct gastrointestinal diseases. Facilitated by high throughput technologies, intestinal flora analyses have elucidated a broad spectrum of neuropsychiatric, immunological, and allergic disorders linked with this organ system. Microbiome research especially has shed light on underlying factors of intestinal disorders. This interplay of environmental bacteria versus host tissue gene expression may have implications for disease pathogenicity and etiological determination. For instance, pancreatic disorders are common symptoms of irritable bowel disease (IBD), which is thought to affect approximately 7% to 21% of the population [1]. However, …

Mechanistic Insights Into Gram-Negative Envelope Remodeling For Protection Against Severe Outer Membrane Defects, Katie N. Kang

Biology Dissertations - Archive

Gram-negative bacteria account for the majority of antibiotic resistant infections. Regulated modifications within the cell envelope can promote resistance to clinically important antibiotics. The increased prevalence of antibiotic treatment failure highlights the importance of investigating the underlying resistance mechanisms. Of particular concern is resistance to last-line antimicrobials, such as polymyxin E (colistin). Colistin is a cationic antimicrobial lipopeptide that binds the negatively charged lipid A domain of lipopolysaccharide, a glycolipid enriched in the Gram-negative outer membrane, to perturb the envelope and lyse the cell. However, several Gram- negative pathogens have evolved intrinsic colistin resistance mechanisms. For example, many Enterobacteriaceae modify …

Identification Of Genetic Factors Underlying Megaesophagus And Startle Disease In Dogs, Sarah M. Bell

All Dissertations

Dogs provide an excellent model for human hereditary disease research; thus, the development of canine genomic tools has been prioritized in recent years. Today, SNP arrays, multiple genome assemblies, and multi-breed reference panels containing whole genome resequencing (WGS) data from hundreds of canids are available to facilitate genome-wide genotyping in the dog. Herein, a variety of genome-wide techniques are employed to identify the genetic factors underlying congenital idiopathic megaesophagus (CIM) in two breeds, German shepherd dogs (GSDs) and Great Danes, and startle disease in Spanish greyhounds.

CIM is a complex canine esophageal motility disorder characterized by ineffective peristalsis and esophageal …

Unveiling The Opioid Crisis: The Impact Of Opioids On Body Systems And Alternative Treatment Options To Reduce The Nationwide Opioid Epidemic, Krishna S. Patel, Elizabeth A. Manheim Ph.D.

Kean Quest

No abstract provided.

Mission Possible, Shashank Shah, Vijaya Sunder M

Asian Management Insights

Overcoming challenges to bring clean water to rural India.

Pestfacts Wa Issue 03 - May 2022, Svetlana Micic, Dustin Severtson, Jean Galloway, Cindy L. Webster

PestFacts WA

PestFacts WA Issue 03 - May 2022 contents:

• Seeing chewing damage in sprayed canola crops but can’t find the culprit?
• Mites and lucerne flea are active
• Slaters
• Meet PestFacts WA team member – Svetlana Micic
• Field pea blackspot forecasts for WA are available online
• PestFacts WA podcast

Mice Lacking Full Length Adgrb1 (Bai1) Exhibit Social Deficits, Increased Seizure Susceptibility, And Altered Brain Development, Fu Hung Shiu, Jennifer C. Wong, Takahiro Yamamoto, Trisha Lala, Ryan H. Purcell, Sharon Owino, Dan Zhu, Erwin G. Van Meir, Randy A. Hall, Andrew Escayg

Neuroscience: Faculty Publications

The adhesion G protein-coupled receptor BAI1/ADGRB1 plays an important role in suppressing angiogenesis, mediating phagocytosis, and acting as a brain tumor suppressor. BAI1 is also a critical regulator of dendritic spine and excitatory synapse development and interacts with several autism-relevant proteins. However, little is known about the relationship between altered BAI1 function and clinically relevant phenotypes. Therefore, we studied the effect of reduced expression of full length Bai1 on behavior, seizure susceptibility, and brain morphology in Adgrb1 mutant mice. We compared homozygous (Adgrb1−/−), heterozygous (Adgrb1+/−), and wild-type (WT) littermates using a battery of tests to assess social behavior, anxiety, repetitive …

Role Of E168d In M. Tuberculosis Igps Catalysis, Hedda Booter

Theses, Dissertations and Culminating Projects

Mycobacterium tuberculosis is a bacterium that affects the lungs and causes tuberculosis, infecting over 10 million people worldwide each year. Owing to the organism’s evolving drug resistance, existing antibiotics no longer combat the disease. The need to discover new drug targets has never been greater. Previous findings suggest that the protein IGPS (indole-3-glycerol phosphate synthase) in M. tuberculosis (MtIGPS) may be a target in the treatment of the disease. MtIGPS catalyzes the fourth step in the tryptophan biosynthetic process. The ability to create their own tryptophan is a major advantage that many bacteria have. The role of E168, in the …

Repeated Boat Noise Exposure Damages Inner Ear Sensory Hair Cells And Decreases Hearing Sensitivity In Atlantic Croaker (Micropogonias Undulatus), Gina A. Badlowski

LSU New Orleans Theses and Dissertations

No abstract provided.

Temporal And Spatial Comparison Of Pseudo-Nitzschia Species Composition And Domoic Acid In Narragansett Bay, Rhode Island And The Northeast U.S. Shelf, Isabella Church, Bethany D. Jenkins

Senior Honors Projects

Diatoms are unicellular algae that make up a significant portion of phytoplankton biomass at the base of marine food webs. Narragansett Bay (NB), RI is home to several species of the diatom genus Pseudo-nitzschia (P-n), some of which are known to cause harmful algal blooms through the production of the potent neurotoxin domoic acid (DA). This toxin can lead to Amnesic Shellfish Poisoning in humans through the consumption of affected shellfish. Although the presence of P-n has been well established in NB for over 50 years, DA levels have only recently become a problem, with shellfish harvest closures …

Describing The Effect Of Thin Layer Sediment Placement On Coastal Microbial Communities Using Foraminifera Diversity, Elizabeth B. Billings

Senior Honors Projects

Salt marshes are rich ecosystems that play an important role in aquatic food systems and prevent erosion while also providing essential habitats for wildlife. Climate change has resulted in rising sea levels and erosion of these coastal wetlands. Thin Layer Sediment Placement (TLP) is a restoration effort being implemented to mitigate the effects of climate change on coastal ecosystems. The TLP process raises elevation of the marsh and provides substrates for vegetative growth by spraying dredged sediment over existing marsh. The impacts of TLP on microbial populations is not widely understood, therefore metrics are required to study the effects of …

Integration Of Medicinal Fungi Into The Heber W. Youngken Jr. Medicinal Garden, Anthony Makashov

Senior Honors Projects

The Heber W. Youngken Jr. Medicinal Garden is a one-of-a-kind resource that houses close to 300 medicinal plants and is filled to the brim with educational opportunities. For the College of Pharmacy, this garden has been the centerpiece of many classes taught here at the University of Rhode Island and has roots as a physical teaching space. While the garden contains a plethora of plant species, medicinal fungi have yet to have been included in the garden, despite their relevance as both sources of pharmaceutical drug discovery and as natural products with inherent physiological benefits themselves. The purpose of my …

The Effect Of Cortisol On Abdominal Fat, Zach Guerrieo

Senior Honors Projects

ZACHARY GUERRIEO (Biological Sciences)

The effect of cortisol on abdominal fat accumulation

Sponsor: Brietta Oaks (Nutrition)

Cortisol is the stress hormone of the body, it increases sugars in the bloodstream, enhances the brain's use of glucose, and increases the availability of substances to repair tissues. A healthy person has a daily slope of cortisol where it is high when they wake up and then decreases throughout the day. Cortisol, however, can be high throughout the day for people who live stressful or unhealthy lives. There have been conversations that high cortisol can cause fat gain specifically in the abdominal area. …

Ballasting System For An Autonomous Underwater Vehicle, Noura Rayes, Bahram Nassersharif, Zach Champney, Kyle Alessandro, Jason Mirandou

Senior Honors Projects

NOURA RAYES (Mechanical Engineering); Ballasting System for an Autonomous Underwater Vehicle Sponsor: Bahram Nassersharif (Mechanical Engineering)

Over the last year, our Mechanical Engineering Capstone team, Nautilus, has been working to design a ballasting system for various Autonomous Underwater Vehicles (AUVs) sponsored by Raytheon Technologies. Common AUV systems are used for a wide range of applications from environmental monitoring, oceanic exploration, to data collection. AUVs also have many technical advantages that make underwater tasks more efficient, cost-effective, and generally safer. Raytheon Technology, specifically, is looking to improve their existing ballasting mechanism for their AUVs to use for military defense. For this …

Assessment Of The University Of Rhode Island's Dining Halls And Student Perceptions Of On-Campus Dining, Maria Cherry

Senior Honors Projects

University dining halls are understudied food environments that affect student diet quality. This study (1) assessed dining hall offerings at the University of Rhode Island (URI) using the Partnership for a Healthier America’s Healthier Campus Initiative (PAHA) criteria for healthier campus food environments and (2) evaluated student perceptions of the dining hall through a campus-wide survey (n=165). We evaluated breakfast, lunch, and dinner using spring cycle menus (16 weeks in 2019 and 4 in 2021) from two full-service dining halls totaling 29 meals in 2019, and 84 meals in 2021 to determine adherence with PAHA criteria for availability of: 1) …

A Pathogen Outside Its Host: F. Tularensis Survival In Water, Aisling Macaraeg

Senior Honors Projects

Francisella tularensis is a Gram-negative pathogenic bacterium and is the causative agent for tularemia. While our understanding of F. tularensis survival in the environment is limited, it is clear they can persist in freshwater aquatic environments for long periods of time. Currently, there is a gap in knowledge with the understanding of the genes involved with the long-term survival of F. tularensis in an aquatic environment. In the laboratory setting, it has been found that lower temperatures seem to allow longer survival. The aim of this project is to identify laboratory conditions that allow F. tularensis to survive longterm in …

Multicopy Suppression Of Ribosomal Protein Deletion Mutants, Jacqualine Cerbone

Senior Honors Projects

To suppress the ribosome assembly defective phenotype of a ribosomal protein uS17- deficient mutant, various ribosomal proteins were used to act as multicopy suppressors. Ribosomal protein uS17 is a highly conserved component of the 30S (small) ribosomal subunit and is important for 30S subunit assembly. Mutants with a deletion of rpsQ (the gene encoding uS17) are viable but have a severe 30S subunit assembly defect and a temperature-sensitive (ts) phenotype. While fully assembled 30S subunits do form, incomplete ("20S") particles lacking several proteins accumulate. We hypothesized that increasing the intracellular concentration of one or more of the proteins missing from …

Investigating The Role Of Bs21 In Vancomycin-Resistant Staphylococcus Aureus, Daniel Floyd

Senior Honors Projects

Staphylococcus aureus is a Gram-positive pathogenic bacterium commonly known for being the causative organism of staph infections in clinical settings. In previous literature, it has been observed that mutations in certain genes in S. aureus can result in resistance to commonly used antibiotics. Specifically, mutations in the gene rpsU, encoding the ribosomal protein bS21, have been present in strains of S. aureus resistant to the antibiotic vancomycin. The aim of my project is to validate these findings by creating a strain of S. aureus without bS21 and performing an antibiotic assay to determine the level of resistance to vancomycin …

The Role Of Stm1987 And Arti In Arginine Response Of Salmonella Typhimurium, Deeba Mohseni

Undergraduate Honors Theses

Cyclic-di-GMP, a common bacterial second messenger, has been thought to help develop virulence and biofilms in bacteria, most specifically in Salmonella Typhimurium. By being able to dysregulate cyclic-di-GMP production, virulence may be better combatted. STM1987, an L-arginine-responsive diguanylate cyclase with a periplasmic sensory domain, dimerizes and generates the bacterial second messenger cyclic-di-GMP in response to the amino acid L-arginine in a pathway that also requires the periplasmic L-arginine-binding protein ArtI. Their biochemical responses to L-arginine and when they dimerize could help clarify this pathway, so I sought to develop a periplasmic dimerization sensor to better monitor these biochemical interactions. Similar …

Gastrointestinal Alterations In Two Mouse Models Associated With Social Behavior Deficits, Gracie Leamon

Undergraduate Honors Theses

The gastrointestinal (GI) tract is a diverse habitat for multiple microorganisms. Disturbances in the microbiome of the GI tract have been associated with psychiatric disorders including autism spectrum disorder (ASD). Individuals with ASD, when compared to neurotypical individuals, have demonstrated differing gut species. Also, it has been shown that microbial transplant therapies impact ASD symptoms in patients. Animal models of behaviors associated with ASD might offer insight for the actual role these microbial differences may occupy regarding symptoms. Unfortunately, ASD does not have an accepted animal model where the GI alterations have been thoroughly explored. In this study, we sought …

The Effects Of Delta-9 Tetrahydrocannabinol (Thc) On Responding For Non-Drug Reinforcers In Rats., Anna Radford

Undergraduate Honors Theses

Although cannabis is widely consumed by humans for the intoxicating effects that are mediated by delta-9 tetrahydrocannabinol (THC), pre-clinical models of THC self-administration have been difficult to establish. We hypothesized that THC may have reinforcement enhancing effects comparable to other drugs (e.g., nicotine and caffeine), which are also widely consumed by humans but difficult to establish as primary reinforcers in non-human animals. To investigate whether THC is a reinforcement enhancer, male (M, n=8) and female (F, n=8) rats were shaped to self-administer a reinforcing saccharin (SACC) solution (0.2% w/v) in standard operant chambers equipped with infrared beams to monitor locomotor …

An Assessment Evaluating The Possible Participation Of A Virtual Nutrition Education Program For Older Adults, Ashlyn Cobble

Undergraduate Honors Theses

The importance of proper nutrition education among older adults is crucial in promoting overall physical health and management of chronic health conditions. However, access to such education has been limited, especially during the COVID-19 pandemic. With the current boom in social media popularity, as well as virtual communication portals such as Zoom, the question must be asked if nutrition education could be effectively implemented for the use of older adults through these electronic channels. The study design for this particular research was a cross sectional survey to inform development of an online nutrition education program for older adults in Northeast …

Severe Hypoxia Up-Regulates Gluconeogenesis In Daphnia, Morad C. Malek

Undergraduate Honors Theses

Hypoxia is a significant low oxygen state that has complex and diverse impacts on organisms. In aerobes, various adaptive responses to hypoxia are observed that vary depending on the level of oxygen depletion and previous adaptation, hence the continued attention to hypoxia as an important abiotic stressor. Adaptive responses to hypoxia are primarily governed by the hypoxia-inducible factors (HIFs), which activate downstream genetic pathways responsible for oxygen transport and metabolic plasticity. In aquatic habitats, oxygen availability can vary greatly over time and space. Therefore, aquatic organisms’ adaptation to hypoxia is likely pervasive, especially in genotypes originating from waterbodies prone to …

Vitamin D And Its In Vitro Therapeutic Action Mediated Through Vdr Rather Than Pdia3, Jaeden Pyburn

Undergraduate Honors Theses

Brain calcification is a common occurrence in the aging process, with >20% of individuals over the age of 65 showing hardened plaques in the basal ganglia. Loss of the vitamin D receptor (VDR) in transgenic mice leads to formation of calcified plaques in the basal ganglia and thalamus within the mice. Vitamin D signals through two known vitamin D responsive proteins, protein disulfide isomerase A3 (PDIA3) and VDR. In vitro, vitamin D has been demonstrated to suppress calcification in osteoblast-like cells. Here, we aim to elucidate which of either PDIA3 or VDR transduce vitamin D mediated suppression of calcification in …