Life Sciences Commons^™

Lighting Up The Cell: Developing A Luminescent Lanthanide Probe For Detecting Rnas, Jonathan Savell

Honors Projects

An anion detecting luminescent probe, Tb:DO2A-Cs124, was repurposed for use in RNA imaging. Potential RNA aptamers were identified for the molecule using Capture-SELEX and MinION sequencing. Fluorimetry data revealed these aptamers did not allow for the probe to luminesce in the presence of target RNAs due to adenosine monophosphate’s ability to quench the emission signal.

Refinement And Application Of The Absorption Cross-Section Of Molecular Bromine With Relevance To Atmospheric Chemistry, Callum Flowerday, Ryan Thalman, Jaron C. Hansen, Eric T. Sevy, Jason J. Sorensen, Matthew C. Asplund

ScholarsArchive Data

Defined Br2 XS - is the defined absorption cross-section using the UVvis spectrophotometer.

BBCEAS - This is raw absorption data measured using the BBCEAS (see article for details).

UVvis raw - This is the raw absorption data measured using the UVvis spectrophotometer.

Colonization-Persistence Trade-Offs In The Human Microbiome, Liam F. Nokes

Environmental Studies Senior Theses

Understanding how diverse microbial taxa coexist in the human body without competitively excluding one another remains a key challenge in microbiome ecology. One proposed explanation is the colonization-persistence trade-off, where species with high colonization ability are poor persisters, and vice versa. We test for this trade-off across human associated microbial communities among many individuals and in multiple body sites using a large-scale participant-level meta-analysis of longitudinal microbiome datasets curated from the MGnify database. We applied island biogeography-based models to calculate effective colonization and persistence rates for microbial families and genera across 606 individuals over twenty-six studies. Regression of the log-transformed …

Exploring Muslim American Attitudes Toward Genetic Testing: Perceptions, Barriers, And Ethical Considerations, Hannah Mahmoud

University Honors Theses

This thesis explores perceptions and attitudes toward genetic testing within the Muslim American community, a group often underrepresented in genomic research and public health discourse. Using a community-distributed digital survey, data was collected from 50 self-identified Muslim Americans on their familiarity with genetic testing, reproductive and ethical considerations, and the influence of religious factors. While only 18% had undergone genetic testing themselves, many were familiar through family or friends, and most expressed cautious interest—especially when results could influence future family planning. Education level, age, and religious values shaped both comfort and understanding.

A key theme was the desire for culturally …

Rewired M6a Of Promoter Antisense Rnas In Alzheimer’S Disease Regulates Neuronal Genes In 3d Nucleome, Benxia Hu, Yuqiang Shi, Feng Xiong, Yi-Ting Chen, Xiaoyu Zhu, Elisa Carrillo, Xingzhao Wen, Nathan Drolet, Chetan Singh Rajpurohit, Xiangmin Xu, Dung-Fang Lee, Claudio Soto, Sheng Zhong, Vasanthi Jayaraman, Hui Zheng, Wenbo Li

Faculty, Staff and Student Publications

N6-methyladenosine (m6A) is an abundant internal RNA modification that can impact gene expression at both post-transcriptional and transcriptional levels. However, the landscapes and functions of m6A in human brains and neurodegenerative diseases, including Alzheimer's disease (AD), are under-explored. Here, we examined RNA m6A methylome using total RNA-seq and meRIP-seq in middle frontal cortex of post-mortem brains from individuals with or without AD, which revealed m6A alteration on both mRNAs and various noncoding RNAs. Notably, many promoter-antisense RNAs (paRNAs) displayed cell-type-specific expression and changes in AD, including one produced adjacent to MAPT that encodes the Tau protein. MAPT-paRNA is highly expressed …

The Bone Is Not Alone: Skeletal Muscle Is A Novel Source Of Fibroblast Growth Factor 23, Kylie Heitman

All ETDs from UAB

Chronic kidney disease (CKD) is a major public health issue often accompanied by various pathologies. Hyperphosphatemia contributes to a range of complications, including vascular calcification, systemic inflammation, anemia, left ventricular hypertrophy, and skeletal muscle atrophy. Phosphate homeostasis is tightly regulated through a combination of renal excretion and its storage in bones, with fibroblast growth factor (FGF) 23 playing a central role in this regulation. Produced primarily by osteocytes in response to elevated serum phosphate, FGF23 helps maintain phosphate balance by promoting renal phosphate excretion and inhibiting the synthesis of vitamin D and parathyroid hormone. Dysregulation of FGF23 is associated both …

A Hormone-Dependent Trna Half Promotes Cell Cycle Progression Via Destabilization Of P21 Mrna, Takuya Kawamura, Megumi Shigematsu, Yohei Kirino

Department of Biochemistry and Molecular Biology Faculty Papers

tRNA halves are among the most abundant short non-coding RNAs in the cellular transcriptome. Here we report that in androgen receptor-positive LNCaP prostate cancer cells, the hormone-dependent 5'-tRNALysCUU half promoted cell proliferation by facilitating cell cycle progression. Global mRNA profiling upon the 5'-tRNALysCUU half depletion revealed that the mRNA of p21, a negative regulator of the cell cycle, is post-transcriptionally destabilized via a 5'-tRNALysCUU half-driven mechanism. YBX1, identified as a protein interacting with 5'-tRNALysCUU half in the cytosol, was shown to stabilize p21 mRNA. Specific sequences resembling the 5'-tRNALysCUU half, located in the 3'-UTR of p21 mRNA and termed LL588, …

Ensemble-Based Binding Free Energy Profiling And Network Analysis Of The Kras Interactions With Darpin Proteins Targeting Distinct Binding Sites: Revealing Molecular Determinants And Universal Architecture Of Regulatory Hotspots And Allosteric Binding, Mohammed Alshahrani, Vedant Parikh, Brandon Foley, Gennady M. Verkhivker

Mathematics, Physics, and Computer Science Faculty Articles and Research

KRAS is a pivotal oncoprotein that regulates cell proliferation and survival through interactions with downstream effectors such as RAF1. Despite significant advances in understanding KRAS biology, the structural and dynamic mechanisms of KRAS allostery remain poorly understood. In this study, we employ microsecond molecular dynamics simulations, mutational scanning, and binding free energy calculations together with dynamic network modeling to dissect how engineered DARPin proteins K27, K55, K13, and K19 engage KRAS through diverse molecular mechanisms ranging from effector mimicry to conformational restriction and allosteric modulation. Mutational scanning across all four DARPin systems identifies a core set of evolutionarily constrained residues …

The Golden Standard: Potential Of Gold Nanoparticles In Cancer Research And Therapy, Caoimhe Mcmanus, Shubhrima Ghosh Dr.

Level 3

No abstract provided.

Utah Farmers Market Consumer Preferences For Local Cut Flowers, Alison Bingham, Kynda R. Curtis, Makaylie Langford

All Current Publications

In this fact sheet, we review the results of a 2024 study examining consumer preferences for local cut flowers at Utah farmers markets. Study data were collected in person via Qualtrics at six farmers markets across northern Utah, with 51 total responses. We discuss farmers market consumer purchasing preferences, familiarity with labeling programs, and preferred flower colors and varieties. Additionally, the factors influencing consumer decisions when purchasing cut flowers, as well as the product information they rely on, are discussed. Overall, the information in this fact sheet will assist cut flower growers in making informed decisions regarding production methods and …

Distribution And Habitat Use Of Sounders Gray Whales From 1990 To 2023, Sara N. Mach

Honors Projects

Abstract: Every spring, a small subgroup of gray whales (Eschrichtius robustus), referred to as “Sounders,” migrate to northern Puget Sound (NPS), Washington State, to forage on small crustaceans, particularly during years of low prey availability in the Arctic, the primary foraging habitat for gray whales. In contrast to gray whales in other locations, Sounders primarily forage on ghost shrimp (Neotrypnea californiensis) while in NPS. These small crustaceans live in the sediment in the intertidal to shallow subtidal zones, so gray whales must wait for higher tides to feed. Gray whale abundance in NPS and time spent …

Analysis Of Gold Nanoparticles To Develop The Rapid Antigen Biosensing Strips For Detection Of Toxins, Trang Nguyen Minh Long, Perveen Akhtar, Gayathree Thenuwara, Vinayak Sharma, Furong Tian Dr., Bilal Javed Dr.

Level 3

No abstract provided.

Nh Coverts Project 2025 Training Schedule, Haley Andreozzi

UNH Cooperative Extension

No abstract provided.

Develpoment Of Urchin-Like Gold Nanoparticles For Drug Delivery Of Glioblastoma And The Colorectal Cancer Cells, Joshua Ozougwu, Vinayak Shama, Bilal Javed Dr., Furong Tian Dr.

Level 3

No abstract provided.

Ultrasound-Mediated Drug Uptake And Cytotocicity In Glioblastoma, Julianne Rogan, Janith Wanigasekera, Esen Efeoğlu

Level 3

No abstract provided.

Senescence Caused By Telomerase Inactivation In Myeloid, Mesenchymal, And Endothelial Cells Has Distinct Effects On Cancer Progression, Joseph Rupert, Zhanguo Gao, Yongmei Yu, Mikhail G Kolonin

Faculty, Staff and Student Publications

The effects of cell senescence in individual cell populations of the tumor microenvironment (TME) on cancer progression remain unclear. Here, we investigated the effects of cell senescence caused by inactivation of the catalytic subunit of telomerase (Tert) in distinct TME components. We generated genetic Tert knockout (KO) mice driven by the LysM promoter in myeloid cells, by the Pdgfra or Pdgfrb promoter in mesenchymal cells, and by the Tie2e promoter in endothelial cells. We compared the effect of the Tert KOs in syngeneic models of orthotopically grafted E0771 breast adenocarcinoma, RM1 prostate adenocarcinoma, and KPC pancreatic adenocarcinoma. Tumors in LysM-Tert …

Swi/Snf Atpase Silenced Hlf Potentiates Lung Metastasis In Solid Cancers, Jin Zhou, Austin Hepperla, Jeremy M Simon, Kangsan Kim, Qing Hu, Chuanhai Zhang, Lei Dong, Lianxin Hu, Cheng Zhang, Chengheng Liao, Alice Fang, Yayoi Adachi, Haoyong Fu, Tao Wang, Qian Liang, Fangzhou Zhao, Hongyi Liu, Masashi Takeda, Jun Fang, Hua Zhong, Peter Ly, Lu Wang, Payal Kapur, Lin Xu, Liwei Jia, Srinivas Malladi, James Brugarolas, M Celeste Simon, Bo Li, Qing Zhang

Faculty, Staff and Student Publications

Metastasis is the main cause of cancer-related deaths, yet the underlying mechanisms remain elusive. Here, using clear cell renal cell carcinoma (ccRCC), a tumor type with frequent lung metastases, we conduct an in vivo genome-wide CRISPR-Cas9 screen and identify HLF as a potent suppressor of lung metastasis. HLF depletion enhances ccRCC cell migration and lung metastasis, whereas HLF overexpression abrogates these effects. In ccRCC patients, HLF expression is reduced at metastatic sites and associates with epigenetic silencing mediated by the SWI/SNF ATPase subunit BRG1. HLF levels negatively correlate with migration potential in collagen. Mechanistically, HLF regulates LPXN expression, modulating the …

Omitting Regional Nodal Irradiation After Response To Neoadjuvant Chemotherapy, Eleftherios P Mamounas, Hanna Bandos, Julia R White, Thomas B Julian, Atif J Khan, Simona F Shaitelman, Mylin A Torres, Frank A Vicini, Patricia A Ganz, Susan A Mccloskey, Peter C Lucas, Nilendu Gupta, X Allen Li, Beryl Mccormick, Benjamin Smith, Rahul D Tendulkar, Vivek S Kavadi, Koji Matsumoto, Samantha Andrews Seaward, William J Irvin, Jolinta Y Lin, Robert W Mutter, Thierry M Muanza, Jannifer Stromberg, Reshma Jagsi, Anna C Weiss, Walter J Curran, Norman Wolmark

Faculty, Staff and Student Publications

Background: The benefit of regional nodal irradiation in the treatment of breast cancer is well established for patients with pathologically positive axillary nodes, but whether it is also beneficial for patients whose nodes become pathologically tumor free (ypN0) after neoadjuvant chemotherapy remains unclear.

Methods: We evaluated whether regional nodal irradiation improves outcomes in patients with biopsy-proven, node-positive breast cancer who reach ypN0 status after neoadjuvant chemotherapy. Patients with breast cancer with a clinical stage of T1 to T3 (tumor size, ≤2 cm to >5 cm), N1, and M0 (indicating spread to one to three axillary lymph nodes but no distant …

Development Of Antimicrobal Formulations From Natural Extracts And Silver Nanoparticles, Ellen Hoey, Lily Jaiswal, Shiv Shankar

Level 3

No abstract provided.

Development Of Antimicrobial Formulations From Natural Extracts And Zinc Nanoparticles, Mia Keane, Lily Jaiswal, Shiv Shankar

Level 3

No abstract provided.

Patterns Of Late Holocene And Historical Extinctions On Madagascar, Laurie R. Godfrey, Zachary S. Klukkert, Brooke E. Crowley, Robin R. Dawson, Peterson Faina, Benjamin Z. Freed, Evon Hekkala, Cortni Borgerson, Harimanjaka A. M. Rasolonjatovo, Patricia C. Wright, Stephen J. Burns

EKU Faculty and Staff Scholarship

Around 1000 years ago, Madagascar experienced the collapse of populations of large vertebrates that ultimately resulted in many species going extinct. The factors that led to this collapse appear to have differed regionally, but in some ways, key processes were similar across the island. This review evaluates four hypotheses that have been proposed to explain the loss of large vertebrates on Madagascar: Overkill, aridification, synergy, and subsistence shift. We explore regional differences in the paths to extinction and the significance of a prolonged extinction window across the island. The data suggest that people who arrived early and depended on hunting, …

Utah Strawberries: Consumer Consumption And Purchasing Preferences, Makaylie Langford, Kynda R. Curtis

All Current Publications

This fact sheet is the first of two discussing the results of a study on consumer preferences and willingness to pay (pricing) for fresh strawberries. The study was conducted on the Logan, Utah, campus of Utah State University (USU) in August 2024, and participants were recruited via campus emails, flyers, and social media posts targeted at the greater Logan community. A total of 116 study participants completed a sensory taste test of organically, locally, and conventionally grown strawberry samples, followed by a survey that included questions about their demographics, shopping habits, and familiarity with, as well as beliefs about, various …

Utah Strawberries: Consumer Preferences For Specialty Labels, Kynda R. Curtis, Makaylie Langford

All Current Publications

This fact sheet is the second of two discussing the results of a study on consumer preferences and willingness to pay (pricing) for fresh strawberries. This fact sheet highlights how specialty labeling influences consumers’ perceptions and willingness to pay. The study was conducted at Utah State University (USU) in August 2024.The study examines familiarity with production and labeling programs, as well as perceptions of local and organic food.

Transition To Organic: Alfalfa Production In Utah, Earl Creech, Ryan Larsen, Marion Murray, Jennifer R. Reeve, Michele Schahczenski

All Current Publications

Transitioning to organic production may not require drastic operational changes on the part of the producer, as alfalfa production lends itself to more organic practices by default. Producers may decide to transition to certified organic production to capture organic price premiums, access niche market opportunities, reduce the use of synthetic inputs, meet growing consumer demand, enact personal values around environmental stewardship, and support soil and biodiversity conservation. Whatever a grower’s motivation, this fact sheet covers transitioning to organic production through understanding organic production systems, the National Organic Program (NOP) regulations, and crop-specific considerations.

A Novel Approach To Treat Trastuzumab Resistant Her2+ Breast Cancer: Activation Pkcδ, Maria Grazia Mejia Monroy

Master's Theses

In the United States, approximately one in eight women will be diagnosed with invasive breast cancer in her lifetime and one in forty will die from breast cancer. From among all the different subtypes of breast cancer, HER2+ can be found in approximately 20% of breast cancer tumors. HER2 overexpression has been associated with an aggressive form of breast cancer, increasing the risk of metastasis or recurrent tumors in 50% of patients. The standard of care for HER2 positive breast cancer, trastuzumab, has been effective for some patients; however, others develop resistance over time, leading to disease progression and metastasis. …

Ghaf Microgreen: A Novel Funvtional Food With Improved Nutritional Content Using Nanoparticles-Seed Priming, Hamda Ahmed Alhindaassi

Thesis/ Dissertation Defenses

Providing enough food for a growing global population is not only a significant issue for the future but also millions of people worldwide suffer from hidden hunger. Microgreens are renowned for their dense nutrient profile, and higher vitamin levels, minerals, and antioxidants than mature plants. Despite the burgeoning interest in microgreens, the availability of diverse and locally relevant varieties remains limited in many regions, including the UAE. This gap in the availability of indigenous microgreens presents an opportunity to explore alternative sources of nutritious greens tailored to the local environment. Among the indigenous flora of the UAE, the Ghaf (Prosopis …

Sample Storage Method And Collection Time Effects On Horse Hair Cortisol Concentrations, Grace Robertson, Savannah Rivers, Thomas Powell, Shea Porr

Steeplechase: An ORCA Student Journal

Serum cortisol concentration is the gold standard for evaluating stress in horses. However, it can be affected by circadian rhythms, environmental factors, and other excitatory events. Hair cortisol is less subject to these variables and is less invasive to collect, but there is a lack of published information on hair cortisol concentrations in horses. The objectives of this study were to examine 1) the impact of sample storage (Room temperature vs. Frozen) and 2) the effect of collection date (spring vs. fall), on cortisol concentration in equine hair. It was hypothesized that Frozen samples would yield higher concentrations than Room …

Evaluating The Effects Of Co₂ And Uv-B On Sporobolus Virginicus (L.) Kunth Growth Under Open Top Chamber: A Comparison Of Silicon Nanoparticle-Treated And Untreated Plants, Suhaila Humaid Ablooshi

Thesis/ Dissertation Defenses

This study looked at how silicon nanoparticles (SiNPs; 50 mg/L) affected the growth and health of Sporobolus virginicus in four different environments: normal conditions, high CO₂, UV-B radiation, and a mix of high CO₂ and UV-B. Plants treated with SiNPs showed much better growth, with more biomass, larger leaves, and better root development, regardless of what stress condition they faced (Ahmad et al., 2024). Additionally, SiNPs improved photosynthetic efficiency, as evidenced by increased levels of chlorophyll a, chlorophyll b, and carotenoids. SiNP application also reduced oxidative stress by lowering malondialdehyde (MDA) levels and enhancing antioxidant defense mechanisms through the elevated …

Electrospun Membranes From Bio-Renewable Poly (Ethylene Furanoate)/Poly (Ethylene Teraphthalate) (Pef/Pet) Blend For Emulsification Application, Aya Sayed Ali

Thesis/ Dissertation Defenses

This thesis focuses on manufacturing electrospun fibrous membranes from a blend of poly (ethylene terephthalate) (PET) and poly (ethylene furanoate) (PEF) and using in premix emulsification. PEF, which is a 100% bio renewable polymer being blended with synthetic PET for membrane fabrication contributes towards sustainability in the production of food and pharmaceutical emulsions. The primary objective of this research is to optimize the fabrication conditions of PET/PEF porous membranes, characterize their properties, and evaluate their performance in emulsification. This study compares PET/PEF blend membrane with individual PET and PEF electro-spun membranes, demonstrating that the PET/PEF blend membrane exhibits superior thermal …

Changes In Morphology, Phenology, And Demography Of Several Avian Species Over 18 Years At A Restored Grassland, Ashley Mcmahon, Katie Stumpf

Georgia Journal of Science

In response to a changing climate and the loss of habitat, avian species are displaying changes in body size, migration phenology, and demography. Several species have adhered to Allen’s and Bergmann’s rules by displaying increased wing length and decreased mass, respectively, over time in response to higher temperatures. Climate change has also resulted in earlier spring migration and depending on species, either earlier or later fall migration. Finally, species affected by habitat loss often display male-skewed sex ratios and juvenile skewed age ratios. Our goal was to determine how body size, migration phenology, and demography have changed for grassland birds …