Digital Commons Network^™

Persistence And Evolution Of Pseudomonas Aeruginosa Following Initiation Of Highly Effective Modulator Therapy In Cystic Fibrosis, Catherine R. Armbruster, Yasmin K. Hilliam, Anna C. Zemke, Samar Atteih, Christopher Marshall, John Moore, Junu Koirala, Leah Krainz, Jordan R. Gaston, Stella E. Lee, Vaughn S. Cooper, Jennifer M. Bomberger

Biological Sciences Faculty Research and Publications

Today, more than 90% of people with cystic fibrosis (pwCF) are eligible for the highly effective cystic fibrosis transmembrane conductance regulator (CFTR) modulator therapy called elexacaftor/tezacaftor/ivacaftor (ETI) and its use is widespread. Given the drastic respiratory symptom improvement experienced by many post-ETI, clinical studies are already underway to reduce the number of respiratory therapies, including antibiotic regimens, that pwCF historically relied on to combat lung disease progression. Early studies suggest that bacterial burden in the lungs is reduced post-ETI, yet it is unknown how chronic Pseudomonas aeruginosa populations are impacted by ETI. We found that pwCF remain infected throughout their …

A Comparative Analysis Of Field Electron Emission From Carbon Black Embedded Within Insulated Copper Hollowed Wires And Glass Tubes, Hatem A. Al-Braikat, Ahmad M D Jaber, Adel M. Abuamr, Mazen A. Madanat, Aseel A. Al-Jbarart, M-Ali H. Al-Akhras, Marwan S. Mousa

Karbala International Journal of Modern Science

In this study, two different methods are used to investigate carbon black as a cold field electron emitter. The first method is to incorporate carbon black into a specially designed insulated copper hollowed wire. The wire has a cup-shaped structure created by electrochemical etching. The second method involves the incorporation of carbon black into narrow glass tubes. A Comparative analyses is carried out to evaluate the effectiveness of each method. To evaluate the performance of the samples, the current-voltage characteristics will be examined using field electron microscopes. This analysis will provide an understanding of the emission of the carbon black …

Modelling And Mapping Of Forest Biodiversity Indicators Using Sentinel-2 And Planetscope Remotely Sensed Data, Diana L. Tesha, Ernest W. Mauya, Sami D. Madundo

Tanzania Journal of Science

Tropical montane forests harbour exceptionally high biodiversity yet face severe threats from human activities. Assessing forest biodiversity over large areas is crucial yet extremely challenging. Remote sensing provides an efficient monitoring solution, but few studies have focused on Tanzania's diverse, montane forests. We collected field data on tree species composition within 159 plots across montane forests in Tanzania's West Usambara region. We calculated species richness, evenness, and Shannon diversity index as indicators of tree diversity. Using Sentinel-2 and PlanetScope satellite imagery, we derived spectral, textural, and vegetation index predictors to model these indices via generalized additive models and extreme gradient …

Genetic Characterization Of Water Yam (Dioscorea Alata L.) And Production Constraints Of Yam In Pwani Region And Unguja Island, Tanzania, Gladness E Temu, Veneranda E Mlegi, Nessie D Luambano

Tanzania Journal of Science

Yam (Dioscorea spp.) is a tuber crop cultivated in over 30% of all regions in Tanzania, contributing to the carbohydrate needs of many households. The morphological and genetic diversity of water yam (D. alata L.) local cultivars collected from Pwani region and Unguja Island were evaluated using 26 agro-morphological characters and 10 Short Sequence Repeat (SSR) markers. Cluster analysis using morphological characters classified nine water yam local cultivars into two main clusters with three subclusters. Tuber flesh and leaf colour were the main descriptors for clustering. The genetic diversity of 128 water yam genotypes using ten polymorphic SSR markers generated …

Modelling The Combined Use Of Long-Lasting Insecticidal Nets And Insecticides Zooprophylaxis Against The Resilience Of Anopheles Arabiensis For Effective Malaria Control, Watson Levens

Tanzania Journal of Science

Malaria is a significant public health concern, especially in tropical regions. It remains endemic in many areas where malaria mosquitoes are prevalent. This study investigates the viability of insecticide zooprophylaxis (IZ) in conjunction with Long Lasting Insecticidal Nets (LLINs) as a strategic approach to combat malaria transmission, particularly in regions dominated by zoophagic vectors. Through the presentation and analysis of a mathematical model that integrates IZ and LLINs for the control of Anopheles arabiensis (An. arabiensis), the research underscores IZ's role in reducing zoophagic vector populations and enhancing malaria control efforts. Notably, the study reveals that achieving comprehensive coverage of …

Dimerization Of The Fluoride Channel Fluc In Membranes, Melanie Ernst

Arts & Sciences Graduate Student Theses and Dissertations

Many ion channels are multi-subunit complexes where oligomerization is an obligatory requirement for function as the binding axis forms the charged permeation pathway. However, the mechanisms of assembly within the membrane are largely unknown. Are ion channel complexes thermodynamically stable, and do they participate in dynamic equilibrium oligomerization reactions in membranes? If so, what are the molecular factors governing these reactions? In this thesis, I present several key advances in the study of ion channel oligomerization in membranes through quantitative studies of the dimerization equilibrium reaction of the inverted topology, homodimeric fluoride channel Fluc in lipid bilayers. Chapter 1 provides …

Developing A Novel Assay For Quantifying Allelopathy Tolerance In Soybeans To Pennycress Glucosinolates In A Controlled Environment, A. Jonaus

Biology Honors Projects

In a pennycress (Thlaspi arvense L.) and soybean (Glycine max L.) relay-cropping system, one concern for farmers is the effects of pennycress allelochemicals on soybean growth and yield. Pennycress root exudates are known to contain sinigrin, a glucosinolate which hydrolyzes to form the harmful compound allyl isothiocyanate (AITC). In addition to serving as defense against herbivory, glucosinolates are also known to have allelopathic effects on surrounding plants by possibly affecting traits like germination, biomass accumulation, nutrient uptake, mycorrhizal symbioses, and nitrogen fixation. This is not ideal in a relay cropping system, where the presence of pennycress can decrease soybean yields …

Contractile Vacuoles: A Rapidly Expanding (And Occasionally Diminishing?) Understanding, Kiran J. More, Harpreet Kaur, Alastair G.B. Simpson, Frederick W. Spiegel, Joel B. Dacks

Biological Sciences Faculty Publications and Presentations

Osmoregulation is the homeostatic mechanism essential for the survival of organisms in hypoosmotic and hyperosmotic conditions. In freshwater or soil dwelling protists this is frequently achieved through the action of an osmoregulatory organelle, the contractile vacuole. This endomembrane organelle responds to the osmotic challenges and compensates by collecting and expelling the excess water to maintain the cellular osmolarity. As compared with other endomembrane organelles, this organelle is underappreciated and under-studied. Here we review the reported presence or absence of contractile vacuoles across eukaryotic diversity, as well as the observed variability in the structure, function, and molecular machinery of …

Monitoring Selenium Bioaccumulation In False Map Turtles (Graptemys Pseudogeographica), Grant M. Budden

Honors Thesis

Selenium is an element that becomes bioactivated in aquatic environments. Selenium bioaccumulation may threaten a South Dakota state-threatened species, the False Map Turtle (Graptemys pseudogeographica). Invertebrate filter feeder species like zebra mussels (Dreissena polymorpha) uptake selenium via exposure. Previous laboratory work has found that False Map Turtles consume large amounts of zebra mussels throughout the summer, leading to selenium bioaccumulation from selenium transfer from prey to predator. A myriad of adverse effects, like selenosis, reproductive infertility, and death, are associated with high selenium concentrations. Sampling was completed on False Map Turtles in the summer of 2022. …

Pathogenesis And Therapeutic Considerations For Nonalcoholic Fatty Liver Disease, Elijah Chung

Senior Honors Theses

A product of the Westernized, high-fat diet, non-alcoholic fatty liver disease (NAFLD) has emerged as the leading cause of chronic liver disease, affecting one-fourth of the world's population. NAFLD is a progressive disease arising from a multisystem response to excess lipids in the blood, adipose tissue, and liver. Despite the prevalence of NAFLD and its well-studied bidirectional association with obesity and type 2 diabetes mellitus and obesity, there is a shocking scarcity of available treatments aside from diet and lifestyle changes. Thus, further research on NAFLD and potential therapies is urgently needed. This paper will illustrate the major pathways associated …

Ecosystem Response To Increasing Hurricane Disturbance: Comparing Nutrient Cycling Dynamics Associated With Early- And Late-Successional Tree Species In A Wet Tropical Forest, Miriam Kleit

Biology Honors Projects

Puerto Rico has seen changes in the frequency and severity of disturbances in recent years as hurricanes become more frequent and more intense under climate change. In ecosystems experiencing increasing disturbances, we expect that species composition will shift as early successional trees become more common. These changes to species composition and community ecology are likely to affect terrestrial nutrient cycling both directly and indirectly, and it is still not well understood how shifting community composition may alter ecosystem functioning. To address this gap, I measured carbon (C) and nitrogen (N) variables in soils, microbial biomass, roots, leaves, and soil greenhouse …

Ablation Of Sam50 Is Associated With Fragmentation And Alterations In Metabolism In Murine And Human Myotubes, Bryanna Shao, Mason Killion, Ashton Oliver, Chia Vang, Faben Zeleke, Kit Neikirk, Zer Vue, Edgar Garza‐Lopez, Jian‐Qiang Shao, Margaret Mungai, Jacob Lam, Qiana Williams, Christopher T. Altamura, Aaron Whiteside, Kinuthia Kabugi, Jessica Mckenzie, Maria Ezedimma, Han Le, Alice Koh, Estevão Scudese, Larry Vang, Andrea G. Marshall, Amber Crabtree, Janelle I. Tanghal, Dominique Stephens, Ho‐Jin Koh, Brenita C. Jenkins, Sandra A. Murray, Anthonya T. Cooper, Clintoria Williams, Steven M. Damo10 M. Damo, Melanie R. Mcreynolds, Jennifer A. Gaddy Gaddy, Celestine N. Wanjalla, Heather K. Beasley, Antentor Hinton Jr.

Biology Faculty Research

The sorting and assembly machinery (SAM) Complex is responsible for assembling β‐barrel proteins in the mitochondrial membrane. Comprising three subunits, Sam35, Sam37, and Sam50, the SAM complex connects the inner and outer mitochondrial membranes by interacting with the mitochondrial contact site and cristae organizing system complex. Sam50, in particular, stabilizes the mitochondrial intermembrane space

bridging (MIB) complex, which is crucial for protein transport, respiratory chain complex assembly, and regulation of cristae integrity. While the role of Sam50 in mitochondrial structure and metabolism in skeletal muscle remains unclear, this study aims to investigate its impact. Serial block‐face‐scanning electron microscopy and computer‐assisted …

Investigating The Adherence Of Maternal Prenatal Vitamin Supplementation In Sarasota, Florida, Priya Darbhanga, Kaisha Mcmanus

BIO4960: Practicum in Biology I

Prenatal supplementation plays a critical role in supporting a healthy pregnancy and lowering the risk of developmental problems in children. Many expecting mothers do not consume the recommended amounts of such vitamins or any at all. This study aims to identify and understand the factors that contribute to prenatal vitamin adherence amongst women at the Sarasota Medical Pregnancy Center located in Sarasota, Florida. Paper-based questionnaires were administered to all willing participants to assess the current adherence of women to prenatal supplementation and discover the reasonings for such decisions. The primary contributors to adherence to prenatal vitamins were related to a …

Non-Small Cell Lung Cancer Treatment: Current Status Of Drug Repurposing And Nanoparticle-Based Drug Delivery Systems, Tugba Gul Inci, Serap Acar, Di̇lek Balik

Turkish Journal of Biology

Drug repurposing is the strategy of drug utilization for a treatment option other than the intended indications and has increased over the past decades, especially within cancer nanomedicine. Cancer nanomedicine has been facilitated through nanoparticle-based (NP-based) delivery systems which can combat NSCLC via recent advances in nanotechnology and apply its benefits to existing drugs. An effective therapeutic solution could be gained via repurposing and accelerated via NP-based drug delivery systems. This review aims to present an overview of NSCLC treatments with a special focus on drug repurposing with details of clinical study advances and NP-based drug delivery systems for NSCLC. …

Nampt, Il-6, And Vaspin Gene Expressions And Serum Protein Levels In Type 2 Diabetes Mellitus And Related Complication, Süheyla Pınar Çelik, Damla Nur Parıltı, Leyla Açık, Mehmet Muhittin Yalçın, İlhan Yetkin, Eldeniz Yunusov

Turkish Journal of Biology

Type 2 diabetes (T2DM) is the most common type of diabetes and occurs due to insufficient insulin secretion or inability to use existing insulin and the effects of environmental factors. Although there are many studies on the pathophysiology of T2DM, the mechanisms playing a role in the pathogenesis of insulin resistance and pancreatic beta-cell dysfunction have not been fully elucidated. Some adipokines secreted from adipose tissue, which are the primary regulators of insulin resistance, affect immune and inflammatory functions. Altered adipokine profiles have been observed in obesity and T2DM, leading to severe metabolic risks and changes in insulin sensitivity. This …

Determining The Role Of Ddr2 In Acquired Chemo-Resistance In Ovarian Cancer, Alyssa Oplt

Arts & Sciences Graduate Student Theses and Dissertations

Ovarian cancer is the 5th leading cause of cancer death in women with a 5-year survival rate around 30%. Up to 80% of ovarian cancer patients experience disease recurrence and the majority of those cases are resistant to treatment. Therefore, there is a need to understand the mechanisms of chemo-resistance in order to create new therapies and increase patient survival. To accomplish this, I first developed novel, chemo-resistant, syngeneic mouse ovarian cancer cell lines by serial passaging ovarian cancer cells through mice and treating with increasing doses of chemotherapy. These cell lines fill a need in the field for matched …

Investigating Tumor-Stroma Interactions During Ovarian Cancer Metastasis, Angela Marie Schab

Arts & Sciences Graduate Student Theses and Dissertations

The majority of ovarian cancer patients have metastatic disease throughout the peritoneal cavity at the time of diagnosis, at which point the five-year survival is only around 30%. However, no effective therapy exists to prevent or treat ovarian cancer metastasis. To implant into the peritoneal cavity, ovarian cancer cells must attach to the mesothelial cell layer-a monolayer of cells that surrounds all organs of the peritoneal cavity- clear the mesothelial cell layer and invade into the underlying stroma, which hosts fibroblasts and extracellular matrix (ECM). The tumor microenvironment (TME) plays an important role in supporting metastasis and thus is a …

A Novel Algorithm For The Virtual Screening Of Extensive Small Molecule Libraries Against Ercc1/Xpf Protein-Protein Interaction For The Identification Of Therapeutic Resistance-Bypassing Small Anticancer Molecules, Salma Ghazy, Lalehan Oktay, Serdar Durdagi

Turkish Journal of Biology

Background and aim:Cancer cell’s innate chemotherapeutic resistance continues to be an obstacle in molecular oncology. This theory is firmly tied to the cancer cells’ integral DNA repair mechanisms continuously neutralizing the effects of chemotherapy. Amidst these mechanisms, the nuclear excision repair pathway is crucial in renovating DNA lesions prompted by agents like Cisplatin. The ERCC1/XPF complex stands center-stage as a structure specific endonuclease in this repair pathway. Targeting the ERCC1/XPF dimerization brings forth a strategy to augment chemotherapy by eschewing the resistance mechanism integral to cancer cells. This study tracks and identifies small anticancer molecules, with ERCC1/XPF inhibiting potential, within …

Circ-Mettl15 Stimulates The Aggressive Behaviors Of Papillary Thyroid Cancer Cells By Coordinating The Mir-200c-3p/Xiap Axis, Yuhao Huang, Xinyu Zeng, Yanling Cai, Yan Yang, Yujie Zhang, Yiqi Ma, Suping Li

Turkish Journal of Biology

Background and objective: Thyroid cancer is the most common malignant tumor in the endocrine system. Papillary thyroid carcinoma (PTC) accounts for the vast majority of cases in this cancer. Recently, the vital role of circular RNA (circRNA) has been acknowledged in various cancers. However, to date, few studies have examined the roles of circRNAs in PTC. Therefore, this research aimed at exploring the function and mechanism of circ-methyltransferase-like 15 (METTL15) in PTC cells.Methods: First, quantitative measurements of circ-METTL15, miR-200c-3p, and X-linked inhibitor of apoptosis protein (XIAP) in PTC cells were completed with reverse transcription-quantitative polymerase chain reaction or Western blot …

Mir-770-5p-Induced Cellular Switch To Sensitize Trastuzumab Resistant Breast Cancer Cells Targeting Her2/Egfr/Igf1r Bidirectional Crosstalk, Senem Noyan, Bala Gür Dedeoğlu

Turkish Journal of Biology

Background/aim: Studies highlighted the bidirectional crosstalk between the HER family members in breast cancer as resistance mechanism to anti-HER agents. Cross-signaling between HER2/EGFR and ER/IGF1R could play role in the development of resistance to therapeutics hence stimulating cell growth. To overcome this resistance, combined therapies targeting both pathways simultaneously have been proposed as an effective strategy. The involvement of miRNAs in resistance of targeted therapies like trastuzumab was demonstrated in recent studies. Hence the regulation of miRNAs in resistance state could reverse the cell behaviour to drugs. Previously we found that overexpression of miR-770-5p downregulated AKT and ERK expression through …

Game Night! Assessment Of Playability And Learning Effectiveness Of Active Learning Games In Human Anatomy And Physiology Students, Hannah Brady

Honors Theses

Human Anatomy and Physiology (HAP) courses are a requirement for many students pursuing an education in healthcare. Students tend to dread these courses for their abundance of information in such a short amount of time. These courses tend to have a low success rate because students are not adequately prepared for this upper-level class that requires intense dedication and studying. This problem for students is extreme as these courses are required for most pre-health undergraduate students, and these courses may predict their success in their future education. HAP professors are constantly trying to figure out better ways to get students …

Dissecting The Role Of Chromatin Remodeling In Direct Lineage Reprogramming, Kunal Jindal

Arts & Sciences Graduate Student Theses and Dissertations

Direct reprogramming, the direct forced conversion of one somatic cell type to another has widespread applications in regenerative medicine. Owing to its highly complex nature, discovery and validation of new factors for direct reprogramming is challenging and many current protocols suffer from low conversion efficiency, failing to create mature cell types comparable to their in vivo counterparts. Recent advances in single-cell have coupled cell ancestry and transcriptomic state measurement in single-cell RNA sequencing (scRNA-seq) assays. In reprogramming and development, these have allowed mapping lineage specific transcriptional changes both before and during cell fate specification. These methods work by encoding lineage …

Intra- And Interspecific Diversity In A Tropical Plant Clade Alter Herbivory And Ecosystem Resilience, Ari Grele, Tara J. Massad, Kathryn A. Uckele, Lee A. Dyer, Yasmine Antonini, Laura Braga, Matthew L. Forister, Lidia Sulca, Massuo Kato, Humberto G. Lopez, André R. Nascimento, Thomas Parchman, Wilmer R. Simbaña, Angela M. Smilanich, John O. Stireman, Eric J. Tepe, Thomas Walla, Lora A. Richards

Biological Sciences Faculty Publications

Declines in biodiversity generated by anthropogenic stressors at both species and population levels can alter emergent processes instrumental to ecosystem function and resilience. As such, understanding the role of biodiversity in ecosystem function and its response to climate perturbation is increasingly important, especially in tropical systems where responses to changes in biodiversity are less predictable and more challenging to assess experimentally. Using large-scale transplant experiments conducted at five neotropical sites, we documented the impacts of changes in intraspecific and interspecific plant richness in the genus Piper on insect herbivory, insect richness, and ecosystem resilience to perturbations in water availability. We …

How Dna Reveals God’S Design, Alan L. Gillen

Faculty Publications and Presentations

Codes are big in today’s world: QR codes, barcodes, computer codes, cell phone codes, and more. Specific information is needed to identify, diagnose, and inform. DNA is the code for life: microbes, plants, parasites, animals, and man. DNA Day is April 25 because it was this day in history (April 25, 1953) when James Watson and Francis Crick described DNA as the double helix and the code for life. Although we consider DNA the genetic blueprint for life, it has only been known for 80 years. On February 1, 1944, Oswald Avery, Colin MacLeod, and Maclyn McCarty wrote a revolutionary …

Seagrass Conservation And Restoration To Mitigate Ocean Acidification And Climate Change, Tori Benson, Emi Wagner, Jaeger Reed

Celebrating Scholarship and Creativity Day (2018-)

For millennia, various seagrass species have been sequestering and anchoring aquatic carbon into oceanic sediment. The crucial role of seagrasses involves helping mitigate climate change, which emphasizes the urgent need to conserve, sustain, and manage them as part of global climate action efforts. Restoration and conservation studies have shown significant reversal of potential damaging effects, however human activity continues to set back efforts faster than they can proceed. Multiple studies have concluded that there has been a decline in seagrass meadows in previously dense areas; and due to this, surrounding pH levels have declined and rising atmospheric carbon poses a …

Physiological Processes During Reading, Elizabeth Morrey, Emma Smith, Catherine Bohn-Gettler, Jennifer Schaefer

Celebrating Scholarship and Creativity Day (2018-)

There are many different variables that can impact reading comprehension, such as reading level, emotional state, and the content of the text itself. For example, if a text contains inconsistencies (e.g., when a key moment in the text does not align with the information presented earlier in the story), processing slows as readers attempt to resolve the inconsistency. However, little is known about the connection between processing inconsistent versus consistent passages and physiological responses in the body. The goal of this study is to examine whether reading narrative texts containing inconsistent and/or consistent information elicits sympathetic nervous system activation, as …

Are Students Actually Learning What You Think They Are? An Exploration Into The Educational Outcomes Of Course Based Undergraduate Research Labs, Matilda Dumaine, Jacob Saadoun

Biology Presentations

It is important to understand whether students are acquiring intended educational objectives. A course-based undergraduate research experience (CURE) lab seeks to blend the logistical ease and accessibility of college courses with the educational benefits of research experiences. By employing inquiry-based teaching methods, CURE labs enable students to collaborate in a group setting under the guidance of a faculty member, engaging in hands-on research. This project studies how educational outcomes of CURE labs can be measured. CURE labs may improve anything from technical lab skills, to scientific literacy, to persistence in science. These short-, middle-, and long-term goals may be measured …

Quantifying How Natural History Traits Contribute To Bias In Community Science Engagement: A Case Study Using Orbweaver Spiders, John Deitsch, Angela Chuang, David R. Nelsen, Michael Sitvarin, David Coyle

Achieve

Online citizen science platforms can be crucial to the scientific and regulatory community, but inherent biases based on organism traits can influence the likelihood of a species being reported and accurately identified. We explored how traits of orb weaving spiders impact data in iNaturalist, using the invasive Jorō spider as a case study. This species is an outlier among orbweavers due to its large size and bright coloration, and was the most frequently reported species, with the most identifications and research-grade observations. It was also reported by less experienced users on average, highlighting its potential role as a gateway species …

Metabolic Dysfunction In Frontotemporal Dementia, Angelina Freeman '24, Nicole D'Almeida '24, Madeline Salamone '24, Kendall Eby '26, Corinna Gilmore '24

Biology Student Scholarship

Angelina Freeman ’24, Biology major
Nicole d’Almeida ’24, Biology major
Madeline Salamone ’24, Biology major
Kendall Eby ’26, Biology major
Corinna Gilmore ’24, Biology major
Faculty Mentor: Dr. Marla Tipping, Biology

Too Hot To Handle: Climate Change's Effect On Protein Membranes In Metabolism, Jazmine Diaz '24

Biology Student Scholarship

Jazmine Diaz ’24, Biology major
Faculty Mentor: Dr. Elisabeth Arévalo, Biology