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Characterization And Evaluation Of Bioactivity Of Dry Edible Bean And Bean Derived Small Peptides, Bikram Prasad Upadhyaya

Dissertations and Doctoral Documents, University of Nebraska-Lincoln, 2023–

Obesity, diabetes, and their metabolic complications continue to be one of the major global public health concerns with a few effective treatment options. Although regular exercise and a well-balanced diet that includes calories from pulses can be recommended, much remains to be elucidated about the health effects of the various bioactive compounds including peptides and polyphenols present in pulses. Most of the previous studies have focused on individual dietary compounds and only a few investigated the synergistic effect of active compounds in modulating human health. Hence this dissertation aimed first, to provide a comparative evaluation of the overall therapeutic value …

Biomimetic Approach To Elucidate The Role Of Microenvironment In Regulating Cell Communications In Liver Diseases, Youra Moeun

Dissertations and Doctoral Documents, University of Nebraska-Lincoln, 2023–

Liver is a complex organ but often underappreciated for its functions to remove toxins and fight infection in the body. Despite the ongoing prevalence of patients contracting chronic liver diseases, coupled with a global healthcare investment of approximately $70 billion, there is still no effective treatment for chronic liver diseases including alcoholic liver disease. The purpose of this dissertation was to understand the interactions of parenchymal and non-parenchymal liver cells in physiological and pathological like environments. This allowed us to recreate a healthy and the diseased microenvironments to observe the stages of the liver diseases development and apply appropriate treatments …

Modeling Overdraft-Driven Nitrate Transport In Shallow Wells For Mitigation And Scenario Planning, Jonathan Cronk

Department of Agricultural and Biological Systems Engineering: Dissertations, Theses, and Student Research

In Nebraska, average nitrate concentrations in groundwater have doubled since 1974, making water quality management more important than ever. As droughts, heat waves, and floods become more common climate events, understanding their impacts will be necessary to make informed management decisions. Emerging literature describes that drought correlates to an increase in the concentration of nitrate-N at domestic and irrigation wells, however the relative contributions of the mechanisms thought to be responsible is currently unknown.

This research assessed the impact of recharge and pumping rate changes as two mechanisms affecting nitrate-N concentration during drought, assessed the relationship between well depth and …

Housing Discrimination And Negative Attitudes Towards Ex-Offender Parents, Julie C. Wertheimer-Meier

Dissertations and Doctoral Documents, University of Nebraska-Lincoln, 2023–

While the Fair Housing Act prohibits housing discrimination because of race, gender, religion, sex, disability, family status, and national origin, it allows housing providers to discriminate on the basis of criminal history. Prior research shows that housing providers disproportionately deny housing to ex-offender applicants and single parent applicants with young children. An ex-offender parent’s inability to acquire safe and affordable housing decreases the potential for reunification with their children and increases the risk of lost custody or parental rights termination. This dissertation consisted of two experiments that examined the effects of negative attitudes towards ex-offender parents on those parents’ ability …

Convolutional Neural Network-Based Gene Prediction Using Buffalograss As A Model System, Michael Morikone

Complex Biosystems Program: Dissertations and Student Research

The task of gene prediction has been largely stagnant in algorithmic improvements compared to when algorithms were first developed for predicting genes thirty years ago. Rather than iteratively improving the underlying algorithms in gene prediction tools by utilizing better performing models, most current approaches update existing tools through incorporating increasing amounts of extrinsic data to improve gene prediction performance. The traditional method of predicting genes is done using Hidden Markov Models (HMMs). These HMMs are constrained by having strict assumptions made about the independence of genes that do not always hold true. To address this, a Convolutional Neural Network (CNN) …

Continuous Time Recurrent Network For Human Activity Detection, Abdallah Al Zubi

Durham School of Architectural Engineering and Construction: Dissertations, Theses, and Student Research

Human activity detection is crucial to personalize the control of the building environment. For example, understanding certain human activities (e.g., walking, sitting, etc.) for an occupant in a building helps provide the proper thermal comfort control. However, these applications require large-scale neural networks that are challenging to implement and train.

In this thesis, we implemented a continuous-time recurrent neural network implementation (CTRNN) network that can solve real-time human activity detection with a smaller-size network. The CTRNN uses differential equations with a time constant to describe the neuron equations. It was implemented and trained for the first time using TensorFlow. Specifically, …

Cell Surface And Plasma Biomarkers Of Kaposi Sarcoma, Sara R. Privatt

Dissertations and Doctoral Documents, University of Nebraska-Lincoln, 2023–

Kaposi sarcoma-associated herpesvirus is the etiological agent of several pathologies including Kaposi sarcoma, primary effusion lymphoma, and multicentric Castleman’s disease. Here, we investigated both the tumor microenvironment (TME) in KS lesions as well as plasma from KSHV-infected individuals and how metabolic dysfunction and dysregulated cytokines might have a systemic effect on KS tumorigenesis. Based on previously published KS tumor transcriptomics, one aspect of our investigation involved characterizing cell surface glycoproteins with potential to serve as therapeutic targets against KSHV-infected cells or KS tumors or as biomarkers for disease. Expression patterns of such markers may also suggest the cellular origin of …

Characterization Of Adipocyte Mechanical Properties And Stretch Control Of Mechanosignaling In Adipocytes, Tasneem Bouzid

Dissertations and Doctoral Documents, University of Nebraska-Lincoln, 2023–

Obesity has reached global epidemic levels in recent decades and is the leading risk factor for type-2 diabetes (T2D). Adipose tissue behaves as a link between obesity and T2D, with dysfunctional extracellular matrix (ECM) remodeling, adipokine secretion and lipid metabolism leading to insulin resistance. The extracellular mechanophysical milieus is understood to regulate adipocyte differentiation and function through activation of mechanosensory machinery and related pathways. Therefore, exploring the adipocytic response to mechanical loading can provide great pathophysiological insight into obesity and T2D.

Adipose tissue is exposed to various compound forces due to weight-bearing and movement, and adipocyte stiffness influences stress distribution …

Attitudes Towards Public Basic Needs Programs: An Analysis Of Question Order Effect, Period And Cohort Changes, And Differences Across Religious Traditions, Jamy Rentschler

Dissertations and Doctoral Documents, University of Nebraska-Lincoln, 2023–

This dissertation examines public opinions towards public basic needs programs (PBNPs), focusing specifically on differences in attitudes towards spending on assistance to the poor (ATP) and welfare. To do this, I use two different approaches, one focusing on survey methodology and the other looking at social change across time and religious tradition. The first research question addresses potential survey question order effects based upon which question came first, ATP or welfare, and examines how other federal spending priorities may impact opinions towards welfare. I do find question order effects, some of which vary based on the respondent’s race, but the …

Convolutional Neural Network-Based Gene Prediction Using Buffalograss As A Model System, Michael Morikone

Dissertations and Doctoral Documents, University of Nebraska-Lincoln, 2023–

The task of gene prediction has been largely stagnant in algorithmic improvements compared to when algorithms were first developed for predicting genes thirty years ago. Rather than iteratively improving the underlying algorithms in gene prediction tools by utilizing better performing models, most current approaches update existing tools through incorporating increasing amounts of extrinsic data to improve gene prediction performance. The traditional method of predicting genes is done using Hidden Markov Models (HMMs). These HMMs are constrained by having strict assumptions made about the independence of genes that do not always hold true. To address this, a Convolutional Neural Network (CNN) …

Management Of Atrazine, Glyphosate, And Als-Inhibiting Herbicide-Resistant Palmer Amaranth (Amaranthus Palmeri S. Watson) In Herbicide-Resistant And Food Grade White Field Corn, Ramandeep Kaur

Dissertations and Doctoral Documents, University of Nebraska-Lincoln, 2023–

A recent survey reported that Palmer amaranth (Amaranthus palmeri S. Watson) is the number one most difficult to control weed in Nebraska. A survey reported that about 6 million acres in Nebraska are infested with at least one glyphosate-resistant weed. Confirmation and widespread occurrence of atrazine, glyphosate, and ALS-inhibitor-resistant Palmer amaranth in Nebraska is one of biggest concerns for corn producers.

Nebraska, the Cornhusker State, is one of the leading corn producing states with the production of corn on about 9 to 10 million acres annually; and it ranks 1st in food grade white corn and 3rd in field …

Game-Theoretic Approaches To Optimal Resource Allocation And Defense Strategies In Herbaceous Plants, Molly R. Creagar

Dissertations and Doctoral Documents, University of Nebraska-Lincoln, 2023–

Empirical evidence suggests that the attractiveness of a plant to herbivores can be affected by the investment in defense by neighboring plants, as well as investment in defense by the focal plant. Thus, allocation to defense may not only be influenced by the frequency and intensity of herbivory but also by defense strategies employed by other plants in the environment. We incorporate a neighborhood defense effect by applying spatial evolutionary game theory to optimal resource allocation in plants where cooperators are plants investing in defense and defectors are plants that do not. We use a stochastic dynamic programming model, along …

Uv Dynamics Of Different Ring Molecules Studied By Ultrafast Electron Diffraction, Sajib Kumar Saha

Dissertations and Doctoral Documents, University of Nebraska-Lincoln, 2023–

Understanding natural light-induced phenomena requires a direct viewing of atomic motion during structural evolution, which, in turn, facilitates controlling and manipulating these light-induced processes. Ultrafast Electron Diffraction (UED) is a structure-sensitive technique that can probe electronic and nuclear dynamics at sub-angstrom spatial and femtosecond time scales. UED has become a vital tool for studying photo-induced molecular dynamics and underlying science. Organic ring systems are prevalent in biology, materials, and pharmaceuticals. Their synthesis and transformation are fundamental in synthetic chemistry, influencing various fields. We used UV photons to photo-excite different cyclic molecules and investigated their photo-dynamics using gas phase UED. The …

The Development And Evolution Of The Soil Health Nutrient Tool (Aka Haney Test) After Ten Years Of Implementation In A Commercial Agricultural Laboratory, Lance Michael Gunderson

Dissertations and Doctoral Documents, University of Nebraska-Lincoln, 2023–

The growing focus on soil health and regenerative agriculture has brought about the need for new integrated approaches for the analysis of soil. Prior, commercial agricultural laboratories relied on methods to measure chemical properties of the soil, such as pH and nutrients. The Soil Health Nutrient Tool (aka Haney Test) developed by Dr. Rick Haney (United States Department of Agriculture, Agricultural Research Service (USDA-ARS), Blackland Research and Extension Station, Temple, Texas) integrates chemical and biological properties to provide a more holistic understanding of soil fertility management. Following adoption by commercial laboratories in 2013, criticisms regarding variability in measurements and lack …

Precipitation And Greenness In Pastoral Lands Of East Turkana, Kenya, Paul Akpejeluh

School of Natural Resources: Dissertations, Theses, and Student Research

Pastoralism has long supported livelihoods and provided essential ecosystem services in landscapes of East Africa. Vegetation productivity is central to the functioning of pastoral systems but may be affected by changes in climate and landuse. Vegetation monitoring is important for understanding the effects of global change in pastoral lands; however, it can be time and resource intensive. Remote sensing provides opportunities for efficient multi-scale monitoring of vegetation and climatic drivers. In this thesis, I explore the utility of satellite and UAV remote sensing for monitoring vegetation and precipitation trends and relationships in the East of Lake Turkana Region of northern …

Connecting The Nebraska Water Quality Index To The Aquatic Microbial Community Of The North Platte River Basin, Nebraska, Paula R. Guastello

School of Natural Resources: Dissertations, Theses, and Student Research

The Nebraska Water Quality Index, under development by the Nebraska Department of Environment and Energy, summarizes in a single value eight environmental parameters that have been monitored in Nebraska for nearly 20 years. Water quality parameters including those used in the Nebraska Water Quality Index have been shown in previous studies to impact bacterial growth. As such, this index has the potential to correlate with the freshwater microbial community. Here, I relate the Nebraska Water Quality Index to microbial community composition and structure using 16S rRNA gene amplicon sequence data collected from the North Platte River Basin, Nebraska. This index …

Gene Variants In Bola-Dmb, Decr1, Fasn And Srebf1 Associated With Conceptus Death On Day 16 Of Pregnancy In Holstein Cows [Abstract], Carolina L. Gonzalez-Berrios, Courtney Bowden, Pablo J. Pinedo, Jeanette V. Bishop, Hana Van Campen, Thomas R. R. Hansen, Milton G. Thomas

United States Department of Agriculture Wildlife Services: Staff Publications

Investigating the influences of single nucleotide polymorphisms (SNP) associated with conceptus death (CD) on day 16 of pregnancy could distinguish cows who have inferior value for fertility traits. We hypothesized that CD is associated with SNP genotypes that disrupt maternal recognition and lead to early pregnancy loss. RNA sequences from Holstein cow pregnancies (n = 15) with normal conceptuses (Norm) or CD were subjected to SNP discovery via Qiagen CLC Genomics Workbench. Selected SNP were based on previous fertility studies, differentially expressed genes within pregnancy development analyses and proximity to SNP associated with fertility traits in the Cattle QTL …

Development And Psychometric Validation Of The Pandemic-Related Traumatic Stress Scale For Children And Adults, Courtney K. Blackwell, Phillip Sherlock, Kathryn L. Jackson, Julie A. Hofheimer, David Cella, Molly A. Algermissen, Akram N. Alshawabkeh, Lyndsay A. Avalos, Tracy Bastain, Clancy Blair, Michelle Bosquet Enlow, Patricia A. Brennan, Carrie Breton, Nicole R. Bush, Aruna Chandran, Shaina Collazo, Elisabeth Conradt, Sheila E. Crowell, Sean Deoni, Amy J. Elliott, Jean A. Frazier, Jody M. Ganiban, Diane R. Gold, Julie B. Herbstman, Christine Joseph, Margaret R. Karagas, Barry Lester, Jessica A. Lasky-Su, Leslie D. Leve, Kaja Z. Lewinn, W. Alex Mason, Elisabeth C. Mcgowan, Kimberly S. Mckee, Rachel L. Miller, Jenae M. Neiderhiser, Thomas G. O’Connor, Emily Oken, T. Michael O’Shea, David Pagliaccio, Rebecca J. Schmidt, Anne Marie Singh, Joseph B. Stanford, Leonardo Trasande, Rosalind J. Wright, Cristiane S. Duarte, Amy E. Margolis

Department of Child, Youth, and Family Studies: Faculty Publications

To assess the public health impact of the COVID-19 pandemic on mental health, investigators from the National Institutes of Health Environmental influences on Child Health Outcomes (ECHO) research program developed the Pandemic-Related Traumatic Stress Scale (PTSS). Based on the Diagnostic and Statistical Manual of Mental Disorders, 5th Edition (DSM-5) acute stress disorder symptom criteria, the PTSS is designed for adolescent (13–21 years) and adult self-report and caregiver-report on 3–12-year-olds. To evaluate psychometric properties, we used PTSS data collected between April 2020 and August 2021 from non-pregnant adult caregivers (n = 11,483), pregnant/postpartum individuals (n = 1,656), …

Report To The U. S. Congress On Financing Mechanisms For Open Access Publishing Of Federally Funded Research, White House Office Of Science And Technology Policy

Copyright, Fair Use, Scholarly Communication, etc.

Executive Summary The White House Office of Science and Technology Policy (OSTP) submits this report to the Appropriations Committees of the Senate and the House in fulfillment of the requirement in the Committee Report accompanying the Consolidated Appropriations Act, 2023 (P.L. 117-328) for financing mechanisms for open access publishing of federally funded research.1 According to that Report, “The Committee recognizes the considerable progress made by OSTP” and “encourages OSTP to continue its efforts to coordinate the implementation of public access policies across Federal departments and agencies and to identify additional opportunities to enhance access to the results of Federally funded …

Students' Attitudes Towards Animals Influences Youth Development Constructs Based On Interactions With Different Animal Species Prior To College, Allison K. Pachunka

Department of Animal Science: Dissertations, Theses, and Student Research

Human-animal interactions (HAI) are commonplace in society and play a consequential role in a variety of situations such as companion animal ownership, agriculture, or youth programs such as 4-H or FFA. Interacting with animals has been shown to provide developmental benefits to children. Positive youth development (PYD), measured by the Five Cs Model, is a framework that focuses on fostering youth’s potential through positive activities which has been studied specifically in 4-H. However, this framework has not been applied to other organizations such as the National FFA Organization (FFA) or to other young adults with less formal interactions with animals. …

Analysis Of Bombyx Mori Silk And Polyimide Nanofibers, Sabrina Leseul

Department of Mechanical and Materials Engineering: Dissertations, Theses, and Student Research

This thesis presents a study on the properties of Bombyx Mori silk nanofibers and polyimide (PI) nanofibers. Firstly, a Bombyx Mori silk solution has been created with degummed silkworm cocoons in order to separate the fibroin and the sericin, the two main proteins of the silk. The fibroin was then centrifuged to remove insoluble particles and stored and 4°C before mixing with hexafluoroisopropanol (HFIP). On the second part, a polyimide solution, made with shavings of polyimide and N,N-dimethylformamide (DMF). Both solutions are then electrospun. Electrospinning parameters are studied. In this way, a part of my thesis has been dedicated to …

Hydroxyapatite-Based Coatings On Silicon Wafers And Printed Zirconia, Antoine Chauvin

Department of Mechanical and Materials Engineering: Dissertations, Theses, and Student Research

Dental surgery needs a naturally attract implant design that can ensure both osseointegration and soft tissue integration. Hydroxyapatite (HAp), the main mineral constituent of dentine and tooth enamel, is commonly used as a coating component, notably for overlaying titanium– or ceramics–based implants. This thesis aims to investigate the behavior of a HAp-based coating, specifically designed to be compatible with a porous substrate. Coating layers are made by sol–gel dip coating by immersion of porous substrates made by additive manufacturing into solutions of HAp, having been mixed with polyethyleneimine (PEI), to improve the adhesion of HAp on the substrate. First, the …

Applications Of Femtosecond Laser-Processed And Nanoneedle-Synthesized Surfaces To Enhance Pool Boiling Heat Transfer, Peter Efosa Ohenhen

Department of Mechanical and Materials Engineering: Dissertations, Theses, and Student Research

In the present work, the integration of femtosecond laser surface processing (FLSP) with copper hydroxide on hybrid surfaces was examined. The goal was to determine the impact on pool boiling enhancement. The samples for the investigation were fabricated by first functionalizing with FLSP, and the process was then followed by citric acid cleaning (CAC) to eliminate the oxides generated on the copper surface during the FLSP process. After the citric acid cleaning, the samples were immersed in ethanol and subjected to an ultrasonic bath for 25 minutes. This step was performed to eliminate any residual citric acid and loose particles. …

An Analysis Of Plant Response To Herbivory, Lawrence Gustavo Seminario-Romero

Dissertations and Doctoral Documents, University of Nebraska-Lincoln, 2023–

Herbivory is often believed to always negatively affect the growth of plants, but there are plant species that can actually benefit from being consumed by herbivores. These plants have a phenotypic trait known as “compensatory growth.” A plant that exhibits compensatory growth is able to increase its intrinsic growth rate as a response to taking damage caused by herbivory, and as a result, produce more biomass. Very few mathematical models used to describe plant-herbivore interactions have accounted for plant compensatory growth. Moreover, these models tend to assume that herbivores follow a Holling type II functional response, which may not necessarily …

Skin Lipids Alone Enable Conspecific Tracking In An Invasive Reptile, The Argentine Black And White Tegu Lizard (Salvator Merianae), M. Rockwell Parker, Eric A. Tillman, Lauren A. Nazarian, Megan L. Barlowe, Julianna M. Lincoln, Bryan M. Kluever

United States Department of Agriculture Wildlife Services: Staff Publications

Locating potential mates in non-native habitats is one of the most important challenges faced by invasive vertebrate species. The Argentine black and white tegu lizard (Salvator merianae) is a major invasive reptile species in the contiguous United States and is rapidly expanding its range across Florida and the Southeast, in part due to inadequate management strategies and tools. Because a wide array of reptiles, especially squamates (snakes and lizards), have been well-studied for their reliance on chemical cues to locate conspecifics, our project aimed to isolate chemical cues from tegus and assess the ability of adult males and …

Osc-Co2: Coattention And Cosegmentation Framework For Plant State Change With Multiple Features, Rubi Quiñones, Ashok Samal, Sruti Das Choudhury, Francisco Muñoz-Arriola

School of Computing: Faculty Publications

Cosegmentation and coattention are extensions of traditional segmentation methods aimed at detecting a common object (or objects) in a group of images. Current cosegmentation and coattention methods are ineffective for objects, such as plants, that change their morphological state while being captured in different modalities and views. The Object State Change using Coattention-Cosegmentation (OSC-CO²) is an end-to-end unsupervised deep-learning framework that enhances traditional segmentation techniques, processing, analyzing, selecting, and combining suitable segmentation results that may contain most of our target object’s pixels, and then displaying a final segmented image. The framework leverages coattention-based convolutional neural networks (CNNs) and …

Genome Sequences Of Six Cluster Ct And Two Cluster Dj Bacteriophages That Infect Gordonia Rubripertincta, Xavier F. Rodriguez, Daniel C. Williams, Catherine P. Chia

School of Biological Sciences: Faculty Publications

We report the genome sequences of eight bacteriophages isolated using Gordonia rubripertincta NRRL B-16540-SEA. Based on gene content similarity to phages in the Actinobacteriophage database, six of the phages are assigned to phage cluster CT while two are assigned to cluster DJ.

Changes In Lipid Profiles Of Epileptic Mouse Model, Alicia Johnson, Ryan A. Grove, Deepak Madhavan, Cory Honsinger Thomas Boone, Camila Pereira Braga, Hannah Kyllo, Kaeli Samson, Timothy Simeone, Tomáš Helikar, Corrine K. Hanson, Jiri Adamec

Department of Biochemistry: Faculty Publications

Introduction—Approximately 1% of the world’s population is impacted by epilepsy, a chronic neurological disorder characterized by seizures. One-third of epileptic patients are resistant to AEDs, or have medically refractory epilepsy (MRE). One non-invasive treatment that exists for MRE includes the ketogenic diet, a high-fat, low-carbohydrate diet. Despite the KD’s success in seizure attenuation, it has a few risks and its mechanisms remain poorly understood. The KD has been shown to improve metabolism and mitochondrial function in epileptic phenotypes. Potassium channels have implications in epileptic conditions as they have dual roles as metabolic sensors and control neuronal excitation.

Objectives—The …

Executive Order On The Safe, Secure, And Trustworthy Development And Use Of Artificial Intelligence, Joseph R. Biden

Copyright, Fair Use, Scholarly Communication, etc.

Section 1. Purpose. Artificial intelligence (AI) holds extraordinary potential for both promise and peril. Responsible AI use has the potential to help solve urgent challenges while making our world more prosperous, productive, innovative, and secure. At the same time, irresponsible use could exacerbate societal harms such as fraud, discrimination, bias, and disinformation; displace and disempower workers; stifle competition; and pose risks to national security. Harnessing AI for good and realizing its myriad benefits requires mitigating its substantial risks. This endeavor demands a society-wide effort that includes government, the private sector, academia, and civil society.

My Administration places the highest urgency …

Pleistocene Bats (Late Irvingtonian And Late Rancholabrean) From Nuckolls And Sherman Counties, Nebraska, Nicholas J. Czaplewski, Richard George Corner

Transactions of the Nebraska Academy of Sciences and Affiliated Societies

We document rare finds of fossil bats from two localities representing the Pleistocene epoch in southern and central Nebraska, Albert Ahrens locality (No-104, late Irvingtonian age, Middle Pleistocene), Nuckolls County, and Litchfield (Sm-102, late Rancholabrean age, latest Pleistocene), Sherman County. The Albert Ahrens local fauna with strong boreal influence has produced two bats, Lasiurus cf. borealis and Cf. Myotis sp. The Litchfield local fauna, also showing a strong boreal influence, has yielded two bats, Eptesicus fuscus and Cf. Myotis, among a diverse Pleistocene fauna of small vertebrates and a pollen record indicating a boreal mixed conifer and deciduous woodland, …