Life Sciences Commons^™

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 …

Inactivation Of Escherichia Coli, Salmonella Enterica, And Listeria Monocytogenes Using The Contamination Sanitization Inspection And Disinfection (Csi-D) Device, Jennifer Mccoy Sanders, Vanessa Alarcon, Grace Marquis, Amanda Tabb, Jo Ann Van Kessel, Jakeitha Sonnier, Brad J. Haley, Insuck Baek, Jianwei Qin, Moon Kim, Fartash Vasefi, Stanislav Sokolov, Rosalee S. Hellberg

Food Science Faculty Articles and Research

The Contamination Sanitization Inspection and Disinfection (CSI-D) device is a handheld fluorescence-based imaging system designed to disinfect food contact surfaces using ultraviolet-C (UVC) illumination. This study aimed to determine the optimal CSI-D parameters (i.e., UVC exposure time and intensity) for the inactivation of the following foodborne bacteria plated on non-selective media: generic Escherichia coli (indicator organism) and the pathogens enterohemorrhagic E. coli, enterotoxigenic E. coli, Salmonella enterica, and Listeria monocytogenes. Each bacterial strain was spread-plated on non-selective agar and exposed to high-intensity (10 mW/cm²) or low-intensity (5 mW/cm²) UVC for 1–5 s. Control …

The Alexander Technique Applied To Dance And The Choreographic Process: Freeing Physical Expression From Trauma-Based Tension, Julia Johnston

Senior Honors Theses

Ballet, contemporary, and modern dancers have expressed incurring trauma during their training and professional dance experiences; in a 2020 survey, 41% of professional dancers and 30% of ballet students reported experiencing or witnessing sexually inappropriate behavior in their respective workplaces and schools (DDP). This is just one example of a potential source of trauma for dancers. The physiological effects of trauma cause physical effects, creating tension in a dancer’s body. Dance relies on physical expression, the expression of thought and feeling through movement, to connect with the audience. Trauma-based tension inhibits a dancer’s range of physical expression and connection to …

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. …

In Vitro And In Vivo Fermentation Models To Study The Function Of Dietary Fiber In Pig Nutrition, Weikang Huangfu, Hexi Cao, Shouren Li, Shuhang Zhang, Mengqi Liu, Boshuai Liu, Xiaoyan Zhu, Yalei Cui, Zhichang Wang, Jiangchao Zhao, Yinghua Shi

Animal Science Faculty Publications and Presentations

The importance of dietary fiber (DF) in animal diets is increasing with the advancement of nutritional research. DF is fermented by gut microbiota to produce metabolites, which are important in improving intestinal health. This review is a systematic review of DF in pig nutrition using in vitro and in vivo models. The fermentation characteristics of DF and the metabolic mechanisms of its metabolites were summarized in an in vitro model, and it was pointed out that SCFAs and gases are the important metabolites connecting DF, gut microbiota, and intestinal health, and they play a key role in intestinal health. At …

Association Between Monosodium Glutamate Consumption With Changes In Gut Microbiota And Related Metabolic Dysbiosis—A Systematic Review, Hossein Ahangari, Behnam Bahramian, Arezou Khezerlou, Milad Tavassoli, Narges Kiani-Salmi, Vahideh Tarhriz, Ali Ehsani

School of Medicine Faculty Publications

Monosodium glutamate (MSG) is used as a common food additive in some foods. However, based on our search and knowledge, no comprehensive study discussed the effect of MSG on the human gut microbiome. In this study, the effects of MSG on the gut microbiome, liver, and kidney were performed. Data were collected from databases including PubMed, Scopus, Web of Science, and ScienceDirect using the search strategy and keywords. Finally, 14 eligible studies were selected for systematic review. This study provides a new perspective on the effects of MSG on the gut flora, shedding light on the potential relationship between MSG …

04.29.2024 Orsp Connect, Liz Williamson

ORED Newsletter

Locating ORSP training in Blackboard, Marta Panickar, MS Aerospace and Defense Symposium, NSF Common Forms in SciENcv

5-Ht Neurons Integrate Gaba And Dopamine Inputs To Regulate Meal Initiation, Kristine M Conde, Hueyzhong Wong, Shuzheng Fang, Yongxiang Li, Meng Yu, Yue Deng, Qingzhuo Liu, Xing Fang, Mengjie Wang, Yuhan Shi, Olivia Z Ginnard, Yuxue Yang, Longlong Tu, Hesong Liu, Hailan Liu, Na Yin, Jonathan C Bean, Junying Han, Megan E Burt, Sanika V Jossy, Yongjie Yang, Qingchun Tong, Benjamin R Arenkiel, Chunmei Wang, Yang He, Yong Xu

Children’s Nutrition Research Center Staff Publications

Obesity is a growing global health epidemic with limited effective therapeutics. Serotonin (5-HT) is one major neurotransmitter which remains an excellent target for new weight-loss therapies, but there remains a gap in knowledge on the mechanisms involved in 5-HT produced in the dorsal Raphe nucleus (DRN) and its involvement in meal initiation. Using a closed-loop optogenetic feeding paradigm, we showed that the 5-HTDRN→arcuate nucleus (ARH) circuit plays an important role in regulating meal initiation. Incorporating electrophysiology and ChannelRhodopsin-2-Assisted Circuit Mapping, we demonstrated that 5-HTDRN neurons receive inhibitory input partially from GABAergic neurons in the DRN, and the 5-HT response to …

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 …

Cradle Explorer: Casfer Interactive Platform For Data And Model Visualization, Olatunde D. Akanbi, Vibha S. Mandayam, Haiping Ai, Arafath Nihar, Erika I. Barcelos, Laura S. Bruckman, Jeffrey Yarus, Yinghui Wu, Huichun (Judy) Zhang, Roger H. French

Student Scholarship

No abstract provided.

Comprehensive Analysis Of Bulk And Single-Cell Transcriptomic Data Reveals A Novel Signature Associated With Endoplasmic Reticulum Stress, Lipid Metabolism, And Liver Metastasis In Pancreatic Cancer, Xing Wang, Minzhi Gu, Feihan Zhou, Ruiling Xiao, Xiyuan Luo, Lei You, Yupei Zhao

Faculty, Staff and Student Publications

BACKGROUND: Pancreatic ductal adenocarcinoma (PDAC) is a lethal malignancy with high probability of recurrence and distant metastasis. Liver metastasis is the predominant metastatic mode developed in most pancreatic cancer cases, which seriously affects the overall survival rate of patients. Abnormally activated endoplasmic reticulum stress and lipid metabolism reprogramming are closely related to tumor growth and metastasis. This study aims to construct a prognostic model based on endoplasmic reticulum stress and lipid metabolism for pancreatic cancer, and further explore its correlation with tumor immunity and the possibility of immunotherapy.

METHODS: Transcriptomic and clinical data are acquired from TCGA, ICGC, and GEO …

Biosensor-Enhanced Organ-On-A-Chip Models For Investigating Glioblastoma Tumor Microenvironment Dynamics, Gayathree Thenuwara, Bilal Javed, Baljit Singh, Furong Tian

Articles

Glioblastoma, an aggressive primary brain tumor, poses a significant challenge owing to its dynamic and intricate tumor microenvironment. This review investigates the innovative integration of biosensor-enhanced organ-on-a-chip (OOC) models as a novel strategy for an in-depth exploration of glioblastoma tumor microenvironment dynamics. In recent years, the transformative approach of incorporating biosensors into OOC platforms has enabled real-time monitoring and analysis of cellular behaviors within a controlled microenvironment. Conventional in vitro and in vivo models exhibit inherent limitations in accurately replicating the complex nature of glioblastoma progression. This review addresses the existing research gap by pioneering the integration of biosensor-enhanced OOC …

Cytokine Activity Estimation And Receptor Abundance Approximation With Multimodal Scrna-Seq/Cite-Seq Data., Azka Javaid

Dartmouth College Ph.D Dissertations

Single-cell RNA-sequencing (scRNA-seq) data enables individual cell resolution quantification of messenger RNA. While revolutionary for revealing key cell type and cell phenotype-specific heterogeneity, scRNA-seq data has important statistical challenges. First, scRNA-seq data is usually more sparse and second, it is more variable than bulk transcriptomics data. Given these challenges, more intuitive and interpretive statistical and computational methods are needed to develop appropriate solutions. Here, we detail the development of three techniques to perform receptor abundance estimation and cytokine activity estimation for scRNA-seq data. While SPECK (Surface Protein abundance Estimation using CKmeans-based clustered thresholding) and STREAK (gene Set Testing-based Receptor abundance …

Ectoparasites Of The Critically Endangered Green Sawfish Pristis Zijsron And Sympatric Elasmobranchs In Western Australia, Jack Ingelbrecht, Karissa O. Lear, Storm B. Martin, Alan J. Lymbery, Bradley M. Norman, Geoffrey A. Boxshall, David L. Morgan

Harold W. Manter Laboratory of Parasitology: Library Materials

This study reports the metazoan ectoparasite fauna of juvenile Critically Endangered green sawfish, Pristis zijsron, and sympatric elasmobranchs in Western Australia. Five parasite taxa were found on 76 screened P. zijsron: Caligus furcisetifer (Copepoda: Caligidae), Dermopristis pterophila (Monogenea: Microbothriidae), Branchellion plicobranchus and Stibarobdella macrothela (Hirudinea: Piscicolidae), and praniza larvae of an unidentified gnathiid isopod. Only C. furcisetifer and D. pterophila were common, exhibiting discrepant site-specificity, with C. furcisetifer occurring mostly on the head and rostrum, and D. pterophila around the pectoral and pelvic fins. Intensity of infection for C. furcisetifer and D. pterophila increased with host total length and …

Nestedbd: Bayesian Inference Of Phylogenetic Trees From Single-Cell Copy Number Profiles Under A Birth-Death Model, Yushu Liu, Mohammadamin Edrisi, Zhi Yan, Huw A Ogilvie, Luay Nakhleh

Faculty, Staff and Student Publications

Copy number aberrations (CNAs) are ubiquitous in many types of cancer. Inferring CNAs from cancer genomic data could help shed light on the initiation, progression, and potential treatment of cancer. While such data have traditionally been available via “bulk sequencing,” the more recently introduced techniques for single-cell DNA sequencing (scDNAseq) provide the type of data that makes CNA inference possible at the single-cell resolution. We introduce a new birth-death evolutionary model of CNAs and a Bayesian method, NestedBD, for the inference of evolutionary trees (topologies and branch lengths with relative mutation rates) from single-cell data. We evaluated NestedBD’s performance using …

Interaction Of High-Fat Diet And Brain Trauma Alters Adipose Tissue Macrophages And Brain Microglia Associated With Exacerbated Cognitive Dysfunction, Rebecca J Henry, James P Barrett, Maria Vaida, Niaz Z Khan, Oleg Makarevich, Alan I Faden

Faculty, Staff and Student Publications

Obesity increases the morbidity and mortality of traumatic brain injury (TBI). Detailed analyses of transcriptomic changes in the brain and adipose tissue were performed to elucidate the interactive effects between high-fat diet-induced obesity (DIO) and TBI. Adult male mice were fed a high-fat diet (HFD) for 12 weeks prior to experimental TBI and continuing after injury. High-throughput transcriptomic analysis using Nanostring panels of the total visceral adipose tissue (VAT) and cellular components in the brain, followed by unsupervised clustering, principal component analysis, and IPA pathway analysis were used to determine shifts in gene expression patterns and molecular pathway activity. Cellular …

Notes On North American Butterflies, 1, Harry Pavulaan

The Taxonomic Report of the International Lepidoptera Survey

New natural history elements and distribution records of several North American butterflies are reported. Taxonomy is often driven by geographical analyses. Cartography, coupled with internet-based imagery, opens up a promising wealth of information, allowing avocational researchers a tool by which inconvenient visits to institutional collections are no longer necessary for resolving some basic questions. While diversity and distribution of butterflies in North America are commonly believed to be fully known, the findings presented here show that much is yet to be learned of our butterfly fauna.

Antimicrobial Activity Of Cat Flea (Ctenocephalides Felis) Gut Proteins On Different Days After Blood Feeding, Dhruva K. Karnik

Honors College Theses

Cat fleas (Ctenocephalides felis) are a blood-feeding ectoparasitic insect and a common domestic pest found throughout the world. Because of their reliance on host blood, fleas are exposed to blood-borne pathogens; however, the flea gut lumen is a hostile environment for microbial colonization. For example, the gut epithelia differentially express immune genes in response to feeding. In the present study, we measured the antimicrobial activity of gut proteins from cat fleas at different days after feeding (2, 5, 7, and 14). Dissected flea guts were homogenized, passed through a syringe filter, and measured in a protein assay kit. …

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 …

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 …

Just “Getting By” – Understanding Resource Deficits And Barriers To Medical Interpretation From The Perspectives Of Spanish-Speaking Patients And Emergency Department Nurses, Magdalena Scribner Briggs

Undergraduate Honors Theses

Introduction: Professional medical interpretation has been found to improve communication quality and health outcomes for patients with LEP. There are over 16 million LEP Spanish-speakers in the United States, yet the literature indicates that professional interpretation is lacking and underutilized in many clinical settings. Study Aims: Based on gaps in the literature pertaining to the perspectives of nurses and the cultural factors that influence patient experience, this study aims to qualitatively analyze the matter from the perspectives of both nurses and Spanish-speaking patients. The purpose of this study is to identify barriers to the utilization of professional interpreters, especially by …

Sequence Learning In A 6-Ohda Mouse Model Of Parkinson’S Disease, Ani Gribbin

Neuroscience Honors Projects

Parkinson’s disease (PD), a neurodegenerative disorder originating in the dopaminergic cells of the basal ganglia, is characterized by severe motor impairments such as tremors, bradykinesia, and postural instability. However, non-motor symptoms impacting sensory systems and cognition are consistently pointed to as more greatly affecting quality of life for PD patients. Cognitive impairments in PD can include changes in reward processing, depression, apathy, and increases in risk-taking behavior. Additionally, learning and memory deficits are seen in PD, specifically in motor sequence learning. Often, the neural correlates of sequence learning impairments are traced to the substantia nigra. However, there is some evidence …

The Effect Of Fruit Maturation Stage On Seed Germination Of Iaa9-3 And Iaa9-5 Tomato Mutants, Elfa Muhammad Ihsan Al Aufa, Syariful Mubarok, Anne Nuraini, Rahmat Budiarto, Nurmalita Waluyo, Hiroshi Ezura

Jurnal Kultivasi

One of the internal factors that play an important role in seed quality is the level of the phytohormone auxin. Efforts to increase auxin in seeds include developing new varieties with increased indigenous auxin, such as those found in mutant tomatoes from Micro-Tom, namely iaa9-3 and iaa9-5. This research was conducted to determine the germination response of iaa9-3 and iaa9-5 mutant tomato seeds at different levels of the fruit maturation stage. The research was carried out at the Seed Technology Laboratory, Faculty of Agriculture, Padjadjaran University, and the Seed Testing Laboratory of the Center for Standard Testing of Vegetable Plant …

A Comparison Of Synthetic Fungicide And Trichoderma Spp. Applications Against Clubroot Disease On Cabbage, Rasiska Tarigan, Rina Christina Hutabarat, Bina Karo, Perdinanta Sembiring, Delima Napitupulu, Supardi, Rudi Cahyo Wicaksono, Jamaluddin, Wiwin Setiawati, Ahsol Hasyim

Jurnal Kultivasi

Clubroot is one of the important diseases affecting members of the Cruciferae family. This disease is caused by soil-borne pathogen, called Plasmodiophora brassicae. The pathogen produces motile spores called zoospores. This pathogen results in a drop of cruciferous plant productivity. The objectives of this research were to identify specific Trichoderma species in three districts in Sumatra Utara and to evaluate the potency of T. harzianum (both local species from Berastagi and species developed by Indonesian Vegetable Research Institute (IVEGRI)) to control the disease and then comparing them with the application of synthetic fungicide. The research was conducted in a greenhouse …

Additional Cocopeat And Coconut Water Improves The Seedling Growth Of Robusta Coffee, Intan Ratna Dewi Anjarsari, Anita Febiola, Mira Ariyanti, Ifwarisan Defri

Jurnal Kultivasi

Robusta coffee production can be sucessed by using high-quality seedlings that have good growth performance. One of several keys to success in seedling production is the choosing best planting medium and providing exogenous growth regulators. These include using cocopeat planting media and giving coconut water. This research aims to determine whether using cocopeat planting media and providing coconut water can increase the growth of robusta coffee seedlings. The experiment used a randomized complete group design with six treatments and four replications; each experimental unit consisted of three robusta coffee seedlings. The six tested treatments were control (topsoil 100%); cocopeat 50% …

Sars-Cov-2 Omicron: Viral Evolution, Immune Evasion, And Alternative Durable Therapeutic Strategies, Hailong Guo, Sha Ha, Jason W Botten, Kai Xu, Ningyan Zhang, William R Strohl, Tong-Ming Fu

Faculty, Staff and Student Publications

Since the SARS-CoV-2 Omicron virus has gained dominance worldwide, its continual evolution with unpredictable mutations and patterns has revoked all authorized immunotherapeutics. Rapid viral evolution has also necessitated several rounds of vaccine updates in order to provide adequate immune protection. It remains imperative to understand how Omicron evolves into different subvariants and causes immune escape as this could help reevaluate the current intervention strategies mostly implemented in the clinics as emergency measures to counter the pandemic and, importantly, develop new solutions. Here, we provide a review focusing on the major events of Omicron viral evolution, including the features of spike …

New Records Of Mesobuthus Mesopotamicus (Penther, 1912) In Iraq And Mesobuthus Faiki Sp. Nov. From Turkey (Scorpiones: Buthidae), Ersen A. Yağmur, František Kovařík, Victor Fet, Ridvan Kurt, Fenik S. Hussen, Azhar M. Al-Khazali, Hamid S. Kachel, Ali A. Al-Fanharawi

Euscorpius

New locality records for Mesobuthus mesopotamicus (Penther, 1912) are given from Iraq. The populations from southeastern Turkey, earlier identified as M. mesopotamicus by Kovařík et al. (2022), are examined and compared with the specimens from the area close to the type locality of M. mesopotamicus. These populations are described as a new species, Mesobuthus faiki sp. nov. Detailed illustrations of both species and a map are given.

An Examination Of The Eastern Nebraska And Western Iowa Flash Flood Event Of 6-7 August 1999, Catherine M. Zapotocny

National Oceanographic and Atmospheric Administration: Technical Reports and Related Materials

Flash flooding occurs each summer in eastern Nebraska and western Iowa. While 10-inch rains are extraordinary, it is not uncommon to have at least one excessive rain event during the annual convective season. A significant flash flood occurred in east central Nebraska and western Iowa the night of August 6, 1999 into the morning of August 7, 1999. Antecedent hydrologic conditions limited the loss of life, however considerable property damage resulted as the heavy rain fell over the urbanized areas in eastern Nebraska and western Iowa.

Several flash flood ingredients came together over the area. These meteorological factors are typical …

An Autosomal Recessive Variant In Pygm Causes Myophosphorylase Deficiency In Red Angus Composite Cattle, Mackenzie Batt, Leila G. Venzor, Keri Gardner, Rachel R. Reith, Kelsey A. Roberts, Nicolas J. Herrera, Anna M. Fuller, Gary Sullivan, J. Travis Mulliniks, Matthew L. Spangler, Stephanie J. Valberg, David J. Steffen, Jessica Lynn Petersen

Department of Animal Science: Faculty Publications

Background Between 2020 and 2022, eight calves in a Nebraska herd (composite Simmental, Red Angus, Gelbvieh) displayed exercise intolerance during forced activity. In some cases, the calves collapsed and did not recover. Available sire pedigrees contained a paternal ancestor within 2–4 generations in all affected calves. Pedigrees of the calves’ dams were unavailable, however, the cows were ranch-raised and retained from prior breeding seasons, where bulls used for breeding occasionally had a common ancestor. Therefore, it was hypothesized that a de novo autosomal recessive variant was causative of exercise intolerance in these calves.

Results A genome-wide association analysis utilizing SNP …

The Purification And Thermal Stability Of The Peroxidase Enzyme In Cucurbita Moschata, Garen Hamner

Senior Honors Theses

Peroxidases are enzymes that catalyze the reduction of hydrogen peroxide to water while oxidizing organic substrates and are valuable in spheres like industrial and medical applications and histochemistry. Limitations still exist in the use of the well-studied horseradish peroxidase for certain activities due to limitations like poor thermal stability, thus the search for novel peroxidases that can overcome these limitations is an active area of research. Butternut squash peroxidase (Cucurbita moschata) (BSP) shows promise due to significant activity being found in the skin and apparent enhanced thermal stability, but an efficient purification scheme for it is lacking, as well as …