Life Sciences Commons^™

Zebrafish Electroretinogram Responses, Brooke Campbell

Williams Honors College, Honors Research Projects

The goal of this project is to be able to streamline a protocol for conducting ERGs on zebrafish from mice ERG protocol already present in Dr. Renna’s lab. The objective is to create a protocol specifically for zebrafish and to eliminate any issues that occur when transiting from a mice ERG protocol to a zebrafish ERG protocol and to obtain a light response from zebrafish retinae in differing light intensities. Dr. Renna’s lab has designed an Ex Vivo ERG system with less electrical interference creating defined electrical responses from mouse retina. The setup allows for continual perfusion of the retinal …

Mesenchymal Stem Cells In The Treatment Of Osteogenesis Imperfecta, Erica Lang, Julie A. Semon

Biological Sciences Faculty Research & Creative Works

Osteogenesis Imperfecta (OI) is a Disease Caused by Mutations in Different Genes Resulting in Mild, Severe, or Lethal Forms. with No Cure, Researchers Have Investigated the Use of Cell Therapy to Correct the Underlying Molecular Defects of OI. Mesenchymal Stem Cells (MSCs) Are of Particular Interest Because of their Differentiation Capacity, Immunomodulatory Effects, and their Ability to Migrate to Sites of Damage. MSCs Can Be Isolated from Different Sources, Expanded in Culture, and Have Been Shown to Be Safe in Numerous Clinical Applications. This Review Summarizes the Preclinical and Clinical Studies of MSCs in the Treatment of OI. Altogether, the …

Software Jimenae Allows Efficient Dynamic Simulations Of Boolean Networks, Centrality And System State Analysis, Martin Kaltdorf, Tim Breitenbach, Stefan Karl, Maximilian Fuchs, David Komla Kessie, Eric Psota, Martina Prelog, Edita Sarukhanyan, Regina Ebert, Franz Jakob, Gudrun Dandekar, Muhammad Naseem, Chunguang Liang, Thomas Dandekar

All Works

The signal modelling framework JimenaE simulates dynamically Boolean networks. In contrast to SQUAD, there is systematic and not just heuristic calculation of all system states. These specific features are not present in CellNetAnalyzer and BoolNet. JimenaE is an expert extension of Jimena, with new optimized code, network conversion into different formats, rapid convergence both for system state calculation as well as for all three network centralities. It allows higher accuracy in determining network states and allows to dissect networks and identification of network control type and amount for each protein with high accuracy. Biological examples demonstrate this: (i) High plasticity …

First Draft Genome Of Thecaphora Frezii, Causal Agent Of Peanut Smut Disease, Renee S. Arias, Cinthia Conforto, Valerie A. Orner, Edgardo J. Carloni, Juan H. Soave, Alicia N. Massa, Marshall C. Lamb, Nelson Bernardi-Lima, Alejandro M. Rago

Publications from USDA-ARS / UNL Faculty

Objectives: The fungal pathogen Thecaphora frezii Carranza & Lindquist causes peanut smut, a severe disease currently endemic in Argentina. To study the ecology of T. frezii and to understand the mechanisms of smut resistance in peanut plants, it is crucial to know the genetics of this pathogen. The objective of this work was to isolate the pathogen and generate the first draft genome of T. frezii that will be the basis for analyzing its potential genetic diversity and its interaction with peanut cultivars. Our research group is working to identify peanut germplasm with smut resistance and to understand the genetics …

Forages And Technology Management In Growing And Finishing Beef Cattle Systems, Kelton Adair

Theses and Dissertations in Animal Science

A systems study evaluated the effects of an implant [25.7 mg estradiol (Compudose; Elanco Animal Health)] at two rates of gain (LOW: 0.45 kg/d and HIGH: 0.9 kg/d) applied during the winter backgrounding phase in drylot and winter grazing systems and its effects on subsequent phases of production. HIGH supplementation with an implant during the winter backgrounding phase in the drylot system yielded the greatest ending body weight (EBW) during the summer backgrounding phase (P = 0.04). LOW supplementation, without an implant, improved summer backgrounding average daily gain (ADG; P = 0.05) while achieving similar carcass adjusted final body …

Monitoring The Leaching Of Bisphenol-A From Feminine Hygiene Products Using Fluorescence Spectroscopy, Madison Easley

Honors Theses

Bisphenol-A (BPA) is a compound commonly used as a stabilizer in plastic products, including food storage containers and thermal paper receipts. Because BPA can bind to and activate estrogen receptors, it is linked to reduced fertility, altered development, and hormone-related cancers. A recent study at NYU Medical School confirmed the presence of BPA in pantyliners, pads, tampons, feminine washes and deodorants. This is concerning due to the high absorption capacity of the vulvar skin.

For the research performed in our lab this summer, the goal was to determine if fluorescence spectrophotometry could be used to determine the presence of BPA …

Bsc 345 Southern Miss Gulf Scholars Program Module, Southern Miss Gulf Scholars Program

Southern Miss Gulf Scholars

BSC 345 Southern Miss Gulf Scholars Program Curriculum

Throughout this course students will learn about important marine resources that drive the local seafood economy. On a field trip to the Maritime and Seafood Museum, students will learn about this historical seafood industry and industry practices. Student will also tour the USM Thad Cochran Marine Aquaculture Center to learn about modern aquaculture technologies and take an excursion at sea to observe the off-bottom aquaculture site next to Deer Island.

Safe Food Through Better Labelling: A Robust Method For The Rapid Determination Of Caprine And Bovine Milk Allergens, Joost L. D. Nelis, Amanda L. Dawson, Utpal Bose, Alisha Anderson, Michelle L. Colgrave, James A. Broadbent

Research outputs 2022 to 2026

Accidental milk cross-contamination is one of the most common causes for costly food recalls. Yet, quantifying trace-levels of allergen is time-consuming and current methods are not adapted for routine analyses making quality control for trace-level allergen content impractical. This perpetuates voluntary “may-contain” statements that are unhelpful for people suffering from food allergies. Here, we developed a rapid LC-MS method enabling milk allergen quantification by comparing all tryptic-peptides of major milk allergens. The bovine-specific αS-2 casein peptide and allergen-epitope NAVPITPTLNR provided excellent performance in sensitivity (LOD 1 mg.kg ^{− 1}; LOQ 2 mg.kg ^{− 1}) across various dairy products, …

Consumption Of A Western Diet Enhanced Colitis-Associated Colorectal Cancer And Dysbiosis Of The Fecal Microbiome In Mice Notwithstanding Dietary Intervention Or Fecal Microbiome Transfer, Daphne Michelle Rodriguez Jimenez

All Graduate Theses and Dissertations

In a rodent model of inflammation-associated colorectal cancer, consumption of a Western-style diet increases gut inflammation and enhances risk of developing colon tumors. The goal of this dissertation was to understand the contribution of bacteria within the large intestine on colon inflammation and colon tumorigenesis. Two pre-clinical animal studies were performed using two different intervention strategies to shift the microbiome, and potentially gut inflammation and tumor development: 1) an experiment using dietary supplementation with black raspberries, a functional food enriched in bioactive anthocyanins with purported antiinflammatory activity, and 2) an experiment using fecal microbiota transfer from mice fed a healthy …

Multispecies Genomic Sex Identification Using Ddx3 Gene Polymorphisms, Jessica Felts

All Graduate Theses and Dissertations

PCR sex determination assays must be reliable and cost effective due to the frequent and integral use of these assays in biological research and the animal production industry. Thus, the design of proof of a primer pair with a built-in control is warranted to not only bypass the extra cost of a multiplex reaction, but also to prevent anomalous results that have been documented with other primer pairs.

The objective of this study was to design primer pairs with built in PCR amplification control to identify sex in Equus caballus (domestic horse), Homo sapiens (humans), Macaca mulatta (rhesus macaque), and …

Investigating Mitochondrial Influence On The Rate Of Anaerobic Glycolysis In An In Vitro Model, Mackenzie Jenna' Taylor

All Graduate Theses and Dissertations

The rate at which the muscle acidifies after an animal is harvested has a profound effect on the quality of the resulting pork. When acidification increases gradually, desirable pork quality characteristics are developed. In contrast, rapid acidification deteriorates pork quality, exemplified by the pale, soft, and exudative (PSE) pork defect. The rate of acidification is determined by the rate of anaerobic metabolism in postmortem muscle. Yet the processes controlling postmortem anaerobic metabolism are not well understood. Recent research suggests that mitochondria, the powerhouse of the cell, may influence this process by competing for substrate (pyruvate) with anaerobic metabolism, thereby reducing …

Antimicrobial Peptides In Transgenic Silkworm Silk, David Jaden Turner

All Graduate Theses and Dissertations

Overview: People in India and China have produced silk textiles for thousands of years. Silk is a biodegradable, biocompatible compound used in the production of clothing, bedding, furniture, industrial materials, and medical applications. Over the last 30 years, research has increasingly investigated silk’s antimicrobial effects and how to augment its natural abilities. Antimicrobial peptides, or AMPs, are also an area of increasing interest as the rise of antibiotic resistance reduces the efficacy of current treatments. This project plans to systematically synthesize a fusion protein that incorporates the beneficial properties of each constituent into commercial silkworms.

Innovation: This project seeks to …

How Does Increasing The Darkness Of A Plate Affect The Perception Of Both Bitter And Sweet Flavors?, Jessica Williams

Food Science Undergraduate Honors Theses

Extrinsic cues like plate color have been shown to effect taste perception. Previous studies conducted show a consensus that plate colors can modulate taste perception (Piqueras-Fizman et al., 2012, Stewart & Gross, 2013). No studies, however, have investigated varying color hues and their effect on taste perception. This study aims to determine whether the change in the black to white ratio of plate color can affect consumer perception of sweetness or bitterness.

We presented a group of volunteers two different brownies on plates varying from 100% white to 0% white in 25% increments. A 30:70 male to female gender ratio …

Computational Analysis Of Antibody Binding Mechanisms To The Omicron Rbd Of Sars-Cov-2 Spike Protein: Identification Of Epitopes And Hotspots For Developing Effective Therapeutic Strategies, Mohammed Alshahrani

Computational and Data Sciences (PhD) Dissertations

The advent of the Omicron strain of SARS-CoV-2 has elicited apprehension regarding its potential influence on the effectiveness of current vaccines and antibody treatments. The present investigation involved the implementation of mutational scanning analyses to examine the impact of Omicron mutations on the binding affinity of four categories of antibodies that target the Omicron receptor binding domain (RBD) of the Spike protein. The study demonstrates that the Omicron variant harbors 23 unique mutations across the RBD regions I, II, III, and IV. Of these mutations, seven are shared between RBD regions I and II, while three are shared among RBD …

Anthropogenic Factors Affecting Common Raven Occurrence And Depredation Of Artificial Nests Within Greater Sage‐Grouse Habitat In Southern Utah, Zoë S. Moffett

All Graduate Theses and Dissertations

Certain species of wildlife are more generalist and adaptive than others. These species often flourish when supported by human activities that provide additional food and habitat for them. The common raven (Corvus corax; hereafter raven) is one such species; their populations have risen and spread throughout the Intermountain West. As generalist scavengers and predators, ravens have been found to pose a severe threat to several threatened or sensitive species, including the greater sage-grouse (Centrocercus urophasianus; hereafter sage-grouse). The purpose of my research was to determine the specific anthropogenic and habitat factors that may increase the threat …

Water Conservation Through Drought-Resilient Landscape Plants And Deficit Irrigation, Ji-Jhong Chen

All Graduate Theses and Dissertations

Increases in urban population and inadequate rainfall result in imbalanced water budgets in urban and sub-urban regions. Water conservation becomes important in urban landscapes because of increased water demands. Modern landscape designs require drought-resistant plants to maintain urban landscape greenness during water scarcity. Irrigating plants at their irrigation requirements, which is the minimum irrigation rate that can achieve acceptable aesthetic quality, can also conserve water. However, the drought tolerance and irrigation requrements of most landscape plants have not been widely evaluated. Shepherdia ×utahensis ‘Torrey’ (‘Torrey’ buffaloberry) and Penstemon species (beardtongues) are low-water-use landscape plants, but their drought resistance mechanisms are …

Annotation Of Non-Model Species’ Genomes, Taiya Jarva

Master's Theses

The innovations in high throughput sequencing technologies in recent decades has allowed unprecedented examination and characterization of the genetic make-up of both model and non-model species, which has led to a surge in the use of genomics in fields which were previously considered unfeasible. These advances have greatly expanded the realm of possibilities in the fields of ecology and conservation. It is now possible to the identification of large cohorts of genetic markers, including single nucleotide polymorphisms (SNPs) and larger structural variants, as well as signatures of selection and local adaptation. Markers can be used to identify species, define population …

Growing South Dakota (Summer 2021), College Of Agriculture, Food And Environmental Sciences

Growing South Dakota (Publication of the College of Agriculture, Food and Environmental Sciences)

3 SDSU Little International Celebrates 100 years of Tradition
7 2023 CAFES Celebration of Faculty Excellence
11 South Dakota Agricultural Experiment Station Locations and Research Initiatives
15 Every Acre Counts
16 Undergraduate Research
19 Tanner Sloan: South Dakota State Wrestler & Animal Science Student Takes Home NCAA Division I & U23 World Silver Medals
21 2023 CAFES Outstanding Seniors
23 Robert Streeter: International Advocate for Wildlife Conservation
25 Collegiate Cattlemen's Club
27 Jim and Melody Mielke: Lifelong Donors Contribute to Agriculture in More Ways than One
29 Jackrabbits Now and Then

Improving The Land Trust Model’S Impact On Environmental Conservation In Northern California, Peter Talbot

Master's Projects and Capstones

For years, the land trust sector of California and much of the United States has operated with a dollars and acres mentality that has prioritized fundraising as a result of acreage protected. Within California, nearly 5.8 million acres of land have been protected by 132 land trusts throughout the state. To accommodate for the diverse cross-section of land and the many needs of the population, land trusts take on numerous shapes and sizes. A unique aspect of this diversity is the rich agricultural and natural spaces found throughout the state. This mix of land and variety of land uses has …

Nutrient Optimization For Vegetable Production Under Decoupled Aquaponics Using Brackish Water, Salma Walid Hany Ahmed Abdelfattah

Theses and Dissertations

As the world moves to more sustainable agriculture methods in the agribusiness industry, decoupled aquaponics is recognized as one of the newest techniques currently being utilized to achieve more local food security. As the topic is still freshly new within the industry, a finite number of publications and studies have been made that address the topic hands-on with its many variables. Subsequently, in this paper, an experiment was conducted to assess the most optimized production conditions of both lacinato kale (Brassica oleracea var.palmifolia) and Swiss chard Bright Light (Beta vulgaris ssp. Cicla var. flavescens) plants through the utilization of a …