Research Methods in Life Sciences Commons^™

Moisture Effects On Visible Near-Infrared And Mid-Infrared Soil Spectra And Strategies To Mitigate The Impact For Predictive Modeling, Francis Hettige Chamika Anuradha Silva

Theses and Dissertations

Instrumental disparities and soil moisture are two of the key limitations in implementing spectroscopic techniques in the field. This study sought to address these challenges through two objectives. The first objective was to assess Visible-near infrared (VisNIR) and mid-infrared (MIR) spectroscopic approaches and explore the feasibility of transferring calibration models between laboratory and portable spectrometers. The second objective addressed the challenge of soil moisture and its impact on spectra. The portable spectrometers demonstrated comparable performance to their laboratory-based counterparts in both regions. Spiking with extra-weight, was the most effective calibration transfer method eliminating disparities between instruments. The samples were rewetted …

Deep Ocean Vehicle Applications And Modifications, Nichole "Nikki" T. Arm

Master's Theses

This project had two primary goals: (1) to explore opportunities to further a deep-ocean vehicle’s reach using alternative pressure spheres, and (2) to implement an existing deep-ocean vehicle (lander) in active scientific research.

I gained a greater understanding of the limitations and design choices made for existing pressure spheres using Finite Element Analysis (FEA). My simplified FEA model predicted sphere failure for the existing 30% Fiber Glass 70% Nylon injection molded spheres at an external pressure of 3,954psi or 2,690m ocean-depth (only a 7.38% error compared to the tested minimum failure depth), so I determined it a valid model. I …

In Vitro And In Vivo Evaluation Of Antimicrobial Activity, Oocyst Sporulation Rate, Oocyst Integrity And Oocyst Infectivity In Eimeria Maxima M6 Oocyst Suspensions Treated With Chlorhexidine Salts In Comparison With Potassium Dichromate, Lauren Laverty

Graduate Theses and Dissertations

Eimeria species oocysts cause coccidiosis, one of the costliest diseases in the poultry industry. Coccidiosis infections cause significant economic losses due to reduced performance in chickens and turkeys. The objective of this thesis was to determine fecal bacterial recovery from chlorhexidine (CHX) salt suspensions containing Eimeria maxima M6 oocysts and evaluate the effect of CHX salts on oocysts during long-term cold storage. For bacterial recovery experiments, CHX digluconate and CHX gluconate were tested at different concentrations on poultry fecal slurries during oocyst shedding. Eimeria maxima M6 oocysts were evaluated in CHX salt suspensions to test the effect on oocyst degradation …

Evaluation Of Vegetative Indices To Determine Canopy Ground Cover For Winter Survival And Hybrid Necrosis In Winter Wheat, Micheal Young

Department of Agronomy and Horticulture: Dissertations, Theses, and Student Research

The benefit of unmanned aircraft systems and image processing methods in agronomic research across numerous crops has been well documented as has the importance of wheat, Triticum aestivum L., on the global food supply. Hence there is great interest in digital solutions applied to aspects of wheat breeding. A major trait of importance to winter wheat breeders in higher latitudes is winter survival, which can result in poor yield and performance if lines do not survive extreme cold. Scoring winter survival is most commonly based on visual score of 0% to 100% with the higher percentage conveying higher winter survival …

Impacts Of Disturbance And Nutrient Addition On Coastal Dune Arthropod Communities, Kayla Beitzel

Honors Theses

Coastal dune ecosystems are globally distributed ecosystems that occur from the tropics to the poles and serve as the first line of defense during storms. They are critical habitats for a variety of organisms and also play a critical role in stabilizing coastal habitats. These systems face increased pressure via urban development, recreational expansion, and sea-level rise (Newman et al. 2023; Webster et al. 2005). Insects are vital consumers in coastal ecosystems and act as regulators of plant growth. Low-diversity ecosystems, like coastal dune systems, often contain a higher abundance of low-diverse insect consumers (Ripple et al. 2021), which can …

Human-Bat Interactions In A Disease Emergence Hotspot: Implications For Human Health And Bat Conservation, Reilly Tempest Jackson

Graduate Theses and Dissertations

Bats are an ecologically important taxon that can host zoonotic pathogens. Globally, many bat species are synanthropic and live closely with humans, often roosting in man-made structures. The spatial overlap between humans and bats creates opportunities for human-bat contact, which can lead to human exposure to bat-borne pathogens and conflicts that cause bat mortality. Despite this risk, little is known about the drivers and characteristics of these human-bat interactions in buildings and work is needed to understand this aspect of the wildlife-urban interface. In Chapter I, I present a literature review that identifies the geographic and taxonomic trends in reported …

Demographics, Sexual Dimorphism, And Ecological Aspects Of Ambystoma Annulatum (Ringed Salamander) In Northwest Arkansas, Usa, Brian M. Becker

Graduate Theses and Dissertations

The need to study and monitor amphibian populations is increasing along with the threats to their population stability and persistence in nature. Northwest Arkansas is one of the fastest growing areas in the nation and with that growth comes rapid changes in land use, massive alterations to habitats, habitat loss, and the introduction of nonnative plants and animals. Ambystoma annulatum (Ringed Salamander) is an Ambystomatid endemic to the Ozark and Ouachita Mountains of southern Missouri, northern and western Arkansas, and eastern Oklahoma giving it a relatively small distribution compared to most Ambystoma. Therefore, Arkansas constitutes a significant portion of the …

Downregulation Of Mir-10a-5p As A Potential Therapeutic Target To Improve The Detrimental Effects Of Post-Stroke Social Isolation, Patrick Mooz

Dissertations and Theses (Open Access)

Introduction

Social isolation is detrimental to health. Isolation and loneliness are linked to all-cause mortality and accelerated disease progression in patients with cancer, dementia, and vascular disease. The number of individuals that live alone is increasing in our society, especially in the elderly, and loneliness and isolation represent a profound growing public health challenge. Previous studies have found that the detrimental effects of social isolation can be recapitulated in animal models. Mice that are socially isolated (SI) prior to an experimental stroke have larger infarcts and significantly worse outcomes. Importantly, animals that remain pair housed (PH) when an experimental stroke …

A Signal To Divide: Apoptotic Extracellular Vesicles As Carriers Of Mitogenic And Immunogenic Signals, Safia Essien, Safia Essien

Dissertations and Theses (Open Access)

Efficient replacement of dead cells in epithelial tissue is crucial for maintaining barrier function and tissue homeostasis. Apoptotic cells can signal to neighboring cells to stimulate proliferation and compensate for cell loss and maintain overall cell numbers in normal physiology and cancer. While dying cells can transmit instructive cues to neighboring cells, the molecular mechanisms that induce cell division are not well understood. Recent evidence suggests that apoptotic bodies (ABs) or apoptotic extracellular vesicles (AEVs) mediate cell-to-cell communication and carry diverse biologically active cellular cargo which can influence cell proliferation. This dissertation visualizes and characterizes AEVs in larval zebrafish and …

Unlocking The Mysteries Of Opportunism: Neuroendocrine Insights From An Aseasonal Breeder (Taeniopygia Guttata), Jessica A. Moodie

Graduate Theses and Dissertations (2019 - present)

The regulation of reproductive physiology in animals is mediated by the Hypothalamus-Pituitary-Gonad (HPG) axis. In seasonal breeders, a conserved reciprocal switching of deiodinase enzymes alters thyroid hormone signaling, which controls HPG activity. This study tested the hypothesis that neural regulation of the HPG axis as described in seasonal systems is conserved and repurposed to respond to other cues in aseasonal species. Using water deprivation and nest restriction in the opportunistic Zebra Finch, we were able to create a breeding group and non-breeding group, confirmed by egg laying and changes in ovarian anatomy. Breeding females had clear follicular hierarchy, increased ovary …

Interactions Between Sediment Mechanical Structure And Infaunal Community Structure Following Physical Disturbance, William Cyrus Roger Clemo

Graduate Theses and Dissertations (2019 - present)

Shallow, river-influenced coastal sediments are important for global carbon storage and nutrient cycling and provide a habitat for diverse communities of invertebrates (infauna). Elevated bed shear stress from extreme storms can resuspend, transport, and deposit sediments, disrupting the cohesive structure of muds, and sorting and depositing sand eroded from beaches. These physical disruptions can also resuspend or smother infauna, decreasing abundances and changing community structure. Infaunal activities such as burrowing, tube construction, and feeding can impact sediment structure and stability. However, little is known about how physical disturbance impacts short and long-term sediment habitat suitability and whether disturbance-tolerant infauna influence …

Determination Of P Availability In Feedstuffs And The Effect Of Feedstuffs And Anti-Nutritional Factors On Secretory Iga Production And Host Nutrient Losses In Poultry, Benjamin Parsons

Graduate Theses and Dissertations

The availability of P in feedstuffs and the effect of feedstuffs, feed additives, and anti-nutritional factors on secretory IgA (sIgA) production in chickens were evaluated. A rapid method was developed using the precision-fed rooster assay to evaluate phytic acid disappearance, P digestibility, and phytase efficacy. Further, exogenous phytase was found to be effective at degrading myo-inositol 1,2,3,4,5,6-hexakis, however, the enzyme was less efficient at P release from lower inositol phosphates. The availability of P in feedstuffs was found to be affected by dietary Ca content, where increasing Ca linearly reduced (P < 0.05) both phytic acid hydrolysis and P digestibility. For example, the standardized ileal digestibility of P was reduced from 73 to 47% in soybean meal when the dietary Ca content was increased from 0.30 to 0.75%. The digestibility of P in distillers dried grains with solubles (DDGS) and corn fermented protein (CFP), however, was high across all Ca levels (71 to 80%). Relative P bioavailability based on tibia bone ash was also found to be high for DDGS and CFP, being 81 and 78%, respectively. Upon further evaluation, it was observed that utilizing low dietary Ca levels (0.30%) when P digestibility in individual plant-based feedstuffs was determined overestimated the P digestibility in practical grower diets by up to 16 percentage units. Utilization of higher Ca levels (0.75%) when P digestibility in individual plant-based feedstuffs was determined, however, resulted in calcualted P digestibility values that were within 1 to 3 percentage units of the measured digestibility in practical grower diets. Aside from P, feedstuffs were also evaluated to determine their effect on sIgA production in the intestine. Roosters excreted approximately 6 to 30 mg of sIgA / 24 h. Further, the proportional contribution of sIgA to total endogenous amino acid (AA) losses ranged from 1 to 13%, with the greatest contribution being observed for Trp. The addition of casein to a protein-free diet increased (P < 0.05) sIgA production in both roosters and broiler chickens. There was no change (P > 0.05) in sIgA production compared with the protein-free diet …

Assessment Of Dietary Energy And Amino Acid Diet Formulation In The Modern Broilers, Matheus Freitas Costa

Graduate Theses and Dissertations

As a result of the advancement of genetics, understanding broiler requirements for dietary energy and amino acids is essential for improving live performance and carcass characteristics. The energy system used to formulate diets in poultry is based on metabolizable energy (ME); this equation can be described as the total amount of energy in the feed minus gases and feces. However, the net energy (NE) system may be the best depiction of the energy utilized by birds for production and maintenance purposes once the heat increment (HI) is measured. Thus, a series of studies were conducted to establish the responsiveness of …

The Effects Of Probiotics And Environment On The Swine Gut Microbiome, Bin Zuo

Graduate Theses and Dissertations

The gastrointestinal tract is crucial for nutrient absorption and immune system functionality. It employs a synergistic approach, merging physical and biochemical defenses, to counteract pathogens that enter through dietary or other external routes. This system also facilitates the breakdown of complex carbohydrates, a process beyond the host's innate capacity. In swine, gut microbiota early colonization plays a significant role in several physiological developments, shaped by a variety of determinants including maternal factors and environmental conditions. In the swine industry, the shift to indoor pig farming enhances efficiency but limits soil interaction, potentially impacting gut microbiota diversity. Additionally, the practice of …

Engaging Students In A Genetics Course-Based Undergraduate Research Experience Utilizing Caenorhabditis Elegans In Hybrid Learning To Explore Human Disease Gene Variants, Natalie Forte, Virginia Veasey, Bethany Christie, Amira Carter, Marli Hanks, Alan Holderfield, Taylor Houston, Anil Challa, Ashley Turner

Research, Publications & Creative Work

Genetic analysis in model systems using bioinformatic approaches provides a rich context for a concrete and conceptual understanding of gene structure and function. With the intent to engage students in research and explore disease biology utilizing the nematode Caenorhabditis elegans model, we developed a semester-long course-based undergraduate research experience (CURE) in a hybrid (online/in-person) learning environment—the gene-editing and evolutionary nematode exploration CURE (GENE-CURE). Using a combination of bioinformatic and molecular genetic tools, students performed structure-function analysis of disease-associated variants of uncertain significance (VUS) in human orthologs. With the aid of a series of workshop-style research sessions, students worked in teams …

Brain Microvascular Endothelial Cells Possess A Second Cilium That Arises From The Daughter Centriole, Karthikeyan Thirugnanam, Ankan Gupta, Francisco Nunez, Shubhangi Prabhudesai, Amy Y. Pan, Surya M. Nauli, Ramani Ramchandran

Pharmacy Faculty Articles and Research

Primary cilia from the brain microvascular endothelial cells (ECs) are specialized cell-surface organelles involved in mediating sensory perception, cell signaling, and vascular stability. Immunofluorescence (IF) analysis of human primary brain microvascular ECs reveals two cilia per cell. To confirm the in vitro observation of the two-cilia phenotype in human primary brain ECs, ECs isolated from mouse brain were cultured and stained for cilium. Indeed, brain ECs from a ciliopathic mouse (polycystic kidney disease or Pkd2−/−) also possess more than one cilium. Primary cilium emerges from the mother centriole. Centriole analysis by IF suggests that in brain ECs, markers …

Diabetes-Associated Hyperglycemia Causes Rapid-Onset Ocular Surface Damage, Judy Weng, Christopher Ross, Jacob Baker, Saleh Alfuraih, Kiumars Shamloo, Ajay Sharma

Pharmacy Faculty Articles and Research

Purpose: The metabolic alterations due to chronic hyperglycemia are well-known to cause diabetes-associated complications. Short-term hyperglycemia has also been shown to cause many acute changes, including hemodynamic alterations and osmotic, oxidative, and inflammatory stress. The present study was designed to investigate whether diabetes-associated hyperglycemia can cause rapid-onset detrimental effects on the tear film, goblet cells, and glycocalyx and can lead to activation of an inflammatory cascade or cellular stress response in the cornea.

Methods: Mouse models of type 1 and type 2 diabetes were used. Tear film volume, goblet cell number, and corneal glycocalyx area were measured on …

Liposome Synthesis And Evaluation In The Hek-293 Cell Line, Christine Skibinski

Harrisburg University Research Symposium: Highlighting Research, Innovation, & Creativity

Liposomes were synthesized using the thin film method. A lyophilized power of egg-derived phosphatidylcholine, stearylamine, and cholesterol were added to ethanol and dried under argon to form a lipid cake. The lipid cake was rehydrated with dPBS and sonicated at 60°C forming a heterogenous batch of liposomes. Our results revealed the average size of the liposomes, determined by Dynamic Light Scattering, was approximately 223.1nm, while demonstrating a weakly positive zeta-potential of 1.9± 8.07mv. Next, we tested the antitumor action of the liposomes in the HEK-293 cell line via an MTT assay. We observed that the liposomes were able to inhibit …

Untargeted Metabolomics Analysis On Kidney Tissues From Mice Reveals Potential Hypoxia Biomarkers, Muhammad Imran Sajid, Francisco J. Nunez, Farideh Amirrad, Moom Rahman Roosan, Tom Vojtko, Scott Mcculloch, Amal Alachkar, Surya M. Nauli

Pharmacy Faculty Articles and Research

Chronic hypoxia may have a huge impact on the cardiovascular and renal systems. Advancements in microscopy, metabolomics, and bioinformatics provide opportunities to identify new biomarkers. In this study, we aimed at elucidating the metabolic alterations in kidney tissues induced by chronic hypoxia using untargeted metabolomic analyses. Reverse phase ultrahigh performance liquid chromatography-mass spectroscopy/mass spectroscopy (RP–UPLC–MS/MS) and hydrophilic interaction liquid chromatography (HILIC)–UPLC–MS/MS methods with positive and negative ion mode electrospray ionization were used for metabolic profiling. The metabolomic profiling revealed an increase in metabolites related to carnitine synthesis and purine metabolism. Additionally, there was a notable increase in bilirubin. Heme, N-acetyl-L-aspartic …

I-Guide Climbers: A Model For Multidisciplinary Academic Labs For Early Career Development, Iman Haqiqi, Wei Hu, Ramya Kumaran, Pin-Ching Li, Nicholas Manning, Alex Michels, Ayman Nassar, Jinwoo Park, Jimeng Shi, Adam Tonks, Zhaonan Wang

I-GUIDE Forum

In this paper, we propose a new form of multidisciplinary academic collaboration that goes beyond the traditional modes of knowledge exchange. We argue that most research collaboration today is based on interactions between closely related disciplines, in which researchers share data, methods, and insights within a common framework or problem. However, such collaboration may not foster the development of the communication and management skills essential to a multi-disciplinary research career. Therefore, we suggest establishing a network of researchers from divergent, yet complementary, disciplines who are interested in improving these skills through regular interactions and feedback. The main goal of this …