Digital Commons Network^™

Integrative Computational Approach Identifies Drug Targets In Cd4+ T-Cell-Mediated Immune Disorders, Bhanwar L. Puniya, Rada Amin, Bailee Lichter, Robert Moore, Alex Ciurej, Sydney J. Bennett, Ab Rauf Shah, Matteo Barberis, Tomáš Helikar

Department of Biochemistry: Faculty Publications

CD4⁺ T cells provide adaptive immunity against pathogens and abnormal cells, and they are also associated with various immunerelated diseases. CD4⁺ T cells’ metabolism is dysregulated in these pathologies and represents an opportunity for drug discovery and development. Genome-scale metabolic modeling offers an opportunity to accelerate drug discovery by providing high-quality information about possible target space in the context of a modeled disease. Here, we develop genome-scale models of naïve, Th1, Th2, and Th17 CD4⁺ T-cell subtypes to map metabolic perturbations in rheumatoid arthritis, multiple sclerosis, and primary biliary cholangitis. We subjected these models to in silico …

Codon Bias Can Determine Sorting Of A Potassium Channel Protein, Anja J. Engel, Marina Kithil, Markus Langhans, Oliver Rauh, Matea Cartolano, James L. Van Etten, Anna Moroni, Gerhard Thiel

Nebraska Center for Virology: Faculty Publications

Due to the redundancy of the genetic code most amino acids are encoded by multiple synonymous codons. It has been proposed that a biased frequency of synonymous codons can affect the function of proteins by modulating distinct steps in transcription, translation and folding. Here, we use two similar prototype K⁺ channels as model systems to examine whether codon choice has an impact on protein sorting. By monitoring transient expression of GFP-tagged channels in mammalian cells, we find that one of the two channels is sorted in a codon and cell cycle-dependent manner either to mitochondria or the secretory pathway. …

Device Development For Long-Term Systemic Oral Biologic Drug Delivery, Benjamin Wankum

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

A biologic drug is a drug that is produced by a living organism. Biologic drugs are used to treat various medical conditions such as arthritis, diabetes, or certain forms of cancers due to their high potency and high selectivity of action. Drawbacks of biologics include their poor stability in the gastrointestinal tract and their poor absorption. In effect, this gives the drugs very low bioavailability and short therapeutic half-lives. To combat these obstacles, current delivery methods include subcutaneous injections at home or intravenous or intramuscular injections in a medical facility.

The overall scientific goal of the research was to utilize …

Periodicity In The Electrochemical Dissolution Of Transition Metals, Florian D. Speck, Alexandra Zagalskaya, Vitaly Alexandrov, Serhiy Cherevko

Department of Chemical and Biomolecular Engineering: Faculty Publications

Extensive research efforts are currently dedicated to the search for new electrocatalyst materials in which expensive and rare noble metals are replaced with cheaper and more abundant transition metals. Recently, numerous alloys, oxides, and composites with such metals have been identified as highly active electrocatalysts through the use of high-throughput screening methods with the help of activity descriptors. Up to this point, stability has lacked such descriptors. Hence, we elucidate the role of intrinsic metal/oxide properties on the corrosion behavior of representative 3d, 4d, and 5d transition metals. Electrochemical dissolution of nine transition metals is quantified using online inductively coupled …

Exploring Community Initiatives That Produce High Quality Volunteers: Citizen Science And Master Naturalist Programs In The United States, Travis Robbins, Alie Mayes, Julie Thomas

Transactions of the Nebraska Academy of Sciences and Affiliated Societies

Citizen science, which has contributed greatly to scientific understanding, works through partnerships between non-governmental and governmental organizations, academia, and most importantly, volunteers. In the United States, Master Naturalist training programs prepare adults as knowledgeable environmental stewards. Once certified, Master Naturalists are encouraged to log annual volunteer activity hours involving scientific research and education. Compared to untrained volunteers, individuals who have completed Master Naturalist training (or similar programs) exhibit greater project involvement and efficiency at collecting data. These traits align well with the goals of citizen science and point to a symbiotic relationship between citizen science and Master Naturalist programs. Here, …

Separator Of Diametral Path Graphs, Cuong Than

School of Computing: Dissertations, Theses, and Student Research

Nowadays, graph algorithms have been applied to many practical issues such as networking, very large-scale integration (VLSI), and transport systems, etc. Constructing an algorithm to find a maximum independent set (MIS) is one of the first NP-Hard problems which have been studied for a long time. Most scientists believe that there is no polynomial-time algorithm for this problem in general graphs. However, many efficient algorithms and approximation schemes to resolve the MIS problem are found in some special graph classes. In this thesis, we are going to introduce a separator construction for a diametral path graph. By using a property …

Exploring Interactions Between Primary Hepatocytes And Non-Parenchymal Cells On Physiological And Pathological Liver Stiffness, Vaishaali Natarajan, Youra Moeum, Srivatsan Kidambi

Department of Chemical and Biomolecular Engineering: Faculty Publications

Chronic liver disease is characterized by progressive hepatic fibrosis leading to the formation of cirrhosis irrespective of the etiology with no effective treatment currently available. Liver stiffness (LS) is currently the best clinical predictor of this fibrosis progression irrespective of the etiology. LS and hepatocytes-nonparenchymal cells (NPC) interactions are two variables known to be important in regulating hepatic function during liver fibrosis, but little is known about the interplay of these cues. Here, we use polydimethyl siloxane (PDMS) based substrates with tunable mechanical properties to study how cell–cell interaction and stiffness regulates hepatocytes function. Specifically, primary rat hepatocytes were cocultured …

White Noise Dark Ecology: Designing For The Soundscape, William Cox

Masters in Architecture Program: Theses

This thesis explores the intersection of architecture, sound, and ecology. It works through the methodology on how to modulate and produce soundscapes rich with various sound objects. It addresses questions on how designers can use the act of listening to engage with the soundscape. This exploration hopes to continue to find niches which create opportunities for new interactions between architecture and ecology through sound. This is all in a continued effort to engage in positive feedback loops between architecture and non-humans to actively break down the divide between the artificial and natural through sound and architecture by designing for the …

Atlas Of Ticks (Acari: Argasidae, Ixodidae) In Germany, Franz Rubel, Katharina Brugger, Lidia Chitimia-Dobler, Hans Dautel, Elisabeth Meyer-Kayser, Olaf Kahl

Harold W. Manter Laboratory of Parasitology: Library Materials

An updated and increased compilation of georeferenced tick locations in Germany is presented here. This data collection extends the dataset published some years ago by another 1448 new tick locations, 900 locations of which were digitized from literature and 548 locations are published here for the first time. This means that a total of 3492 georeferenced tick locations is now available for Germany. The tick fauna of Germany includes two species of Argasidae in the genera Argas and Carios and 19 species of Ixodidae in the genera Dermacentor, Haemaphysalis, and Ixodes, altogether 21 tick species. In addition, three species …

Variants In The Mitochondrial Genome Sequence Of Rhyzopertha Dominica (Fabricius) (Coleoptera: Bostrycidae), Lindsey C. Perkin, Timothy P.L. Smith, Brenda Oppert

Roman L. Hruska U.S. Meat Animal Research Center: Reports

The lesser grain borer, Rhyzopertha dominica, is a coleopteran pest of stored grains and is mainly controlled by phosphine fumigation, but the increase in phosphine-resistant populations threatens efficacy. Some phosphine-resistant insects have reduced respiration, and thus studying the mitochondrial genome may provide additional information regarding resistance. Genomic DNA from an inbred laboratory strain of R. dominica was extracted and sequenced with both short (Illumina) and long (Pacific Biosciences) read technologies for whole genome sequence assembly and annotation. Short read sequences were assembled and annotated by open software to identify mitochondrial sequences, and the assembled sequence was manually annotated and verified …

Center For Grassland Studies, May 2021

Center for Grassland Studies: Newsletters

Contents

Prescribed Burn Associations by Brian Teeter

Center for Grassland Studies Policy Advisory Committee

Director's Column by Walt Schact (Interim Director)

Looking for a Career in Conservation – How to Apply in USAJOBS for NRCS Positions by Mary Reece

Monitoring Sandhills Rangelands: A Key Step in Understanding Plant Community Dynamics by Mitch Stephenson

Development of Novel Plant Fluorescence Based Techniques for Remote Assessment of Grasslands and Pastures Health and Resilience by Anastasios Mazis

UNL PGA Golf Management Alumni Among Nebraska Section Award Winners by Brad Goetsch

Nebraska’s Grassland Legacy by Walt Schacht

Nebraska Grazing Conference: Save the Date, August 9-11, …

Social Partners And Temperature Jointly Affect Morning Foraging Activity Of Small Birds In Winter, Anastasia E. Madsen, Laura N. Vander Meiden, Daizaburo Shizuka

Papers in Behavior in Biological Sciences

Daily foraging activity of small wintering birds is classically thought to be driven by the need to gather enough energy reserves to survive each night. A separate line of research has shown that sociality is a major driver in winter foraging activities in many species. Here, we used wintering birds as a study system to move toward an integrative understanding of the influence of energy requirements and sociality on foraging ecology. We used RFID-enabled feeders in Lincoln, Nebraska, USA in January–March 2019 to measure foraging activity in two species (downy woodpeckers, Dryobates pubescens, and white-breasted nuthatches, Sitta carolinensis). …

Marketing Agroforestry Products: Lessons From Producers

United States Department of Agriculture, Forest Service / University of Nebraska-Lincoln: Faculty Publications

This publication shares producer experiences with marketing agroforestry products, including how producers entered — or created — the markets for their products. These individual stories highlight a diversity of experiences, from family-run farms to intermediaries assisting with market access. United States Department of Agriculture (USDA) and other federal, state, and local programs can provide capital or technical assistance to farmers at different phases of market development. The case studies in this publication highlight programs and resources available through USDA.

While marketing tree crops and non-timber forest products can be a challenge for producers, there is room for growth and opportunities …

The Experts Speak: A New Feature In The Jicr, Michael Gale, Ram Savan, Adolfo Garcia-Sastre, Ludmila Prokunina-Olsso, Kuppusamy Balamurugan, Howard A. Young

United States Public Health Resources

This month we launch a new feature in the JICR: The Experts Speak. This feature is designed to provide first-hand insight from topical experts in the fields of interferon, cytokines, innate immunity, and adaptive immune actions of cytokine biology in disease. We start by asking experts to comment on interferon, cytokines, and SARS-CoV-2.

An Intron Variant Of The Gli Family Zinc Finger 3 (Gli3) Gene Differentiates Resistance Training-Induced Muscle Fiber Hypertrophy In Younger Men, Christopher G. Vann, Robert W. Morton, Christopher B. Mobley, Ivan J. Vechetti, Brian K. Ferguson, Cody T. Haun, Shelby C. Osburn, Casey L. Sexton, Carlton D. Fox, Matthew A. Romero, Paul A. Roberson, Sara Y. Oikawa, Chris Mcglory, Kaelin C. Young, John J. Mccarthy, Stuart M. Phillips, Michael D. Roberts

Department of Nutrition and Health Sciences: Faculty Publications

We examined the association between genotype and resistance training-induced changes (12 wk) in dual x-ray energy absorptiometry (DXA)-derived lean soft tissue mass (LSTM) as well as muscle fiber cross-sectional area (fCSA; vastus lateralis; n = 109; age = 22 ± 2 y, BMI = 24.7 ± 3.1 kg/m2). Over 315 000 genetic polymorphisms were interrogated from muscle using DNA microarrays. First, a targeted investigation was performed where single nucleotide polymorphisms (SNP) identified from a systematic literature review were related to changes in LSTM and fCSA. Next, genome-wide association (GWA) studies were performed to reveal associations between novel SNP targets with …

Component Causes Of Infectious Bovine Keratoconjunctivitis - The Role Of Moraxella Species In The Epidemiology Of Infectious Bovine Keratoconjunctivitis, John Dustin Loy, Matthew Hille, Gabriele Maier, Michael L. Clawson

School of Veterinary and Biomedical Sciences: Faculty Publications

Moraxella bovis can cause infectious bovine keratoconjunctivitis (IBK).

The role of M bovoculi in IBK is not fully understood.

M bovis and M bovoculi appear to undergo genetic recombination with each other or other members of the Moraxellaceae.

Recombination complicates their classification and potential role(s) in IBK pathogenesis.

MALDI-TOF MS is used to identify M bovis, 2 major strains or genotypes of M bovoculi, M ovis, and other members of the Moraxellaceae.

Classification and determination of pathogenesis potential within Moraxella species may be better understood through whole genome sequencing.

Does Integrating Crops With Livestock Production Impact Soil Properties And Crop Production?, Lindsey Anderson

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

Re-integrating crop and livestock production through cover crop (CC) and corn residue grazing could efficiently utilize resources and ensure profitability while improving environmental quality, but how this integration affects soils and crops is not well understood. We conducted two studies to address this. In the first study, we evaluated the impact of cattle (1.3-3.7 head ha^-1) grazing an oat (Avena sativa L.) CC on soil and crop yields in two adjacent irrigated no-till corn (Zea mays L.)-soybean (Glycine max L.) fields on silt loam soils in eastern Nebraska. Field I was grazed twice, while Field …

Gut Community Response To Wheat Bran And Pinto Bean, Shuen Leow

Department of Food Science and Technology: Dissertations, Theses, and Student Research

There is general consensus among the scientific community that dietary fibers reduce the risk of Western diseases through their fermentation by beneficial microbial communities in the human gut. However, dietary fibers in wheat bran (WB) and pinto bean (PB) are incompletely fermented by the gut microbiota. Therefore, there is a critical need to identify gut microbial communities that can increase fermentation of dietary fibers from these foods to maximize their disease-preventing properties. The goal of this study was to identify such communities with increased capacity to ferment the dietary fibers in WB and PB. To accomplish these goals, a stepwise …

Relationship Of Early Life Maltreatment To Self Regulation During An Affective Stroop Task, Sophie Tonjes

College of Education and Human Sciences: Dissertations, Theses, and Student Research

Background: Previous research has found that childhood maltreatment is associated with emotional regulation difficulties, as well associations with brain structures, such as the amygdala and hippocampus. However, there are individual differences in the effect of maltreatment on emotional regulation, and this relationship may be dependent upon amygdala or hippocampal volume. The present study hypothesized that amygdala or hippocampal volume would moderate the relationship between maltreatment and emotional regulation. Method: Forty-nine college students were assessed for their history of parenting and participated in the magnetic resonance imaging (MRI) study. Moreover, to measure emotional regulation skills, participants completed the Affective Stroop task, …

Exploring Supervisor Experiences Of Hope In Clinical Supervision: A Phenomenological Approach, Robert Byrom Jr.

College of Education and Human Sciences: Dissertations, Theses, and Student Research

Supervisory experiences have been identified as one of the primary resources for the clinical training of psychotherapists with respect to both the development of necessary skills and the ability to cope with encountered difficulties. This phenomenological study explored the experiences of clinical supervisors in a current supervisory relationship with one or more supervisees. Specifically, this study explored how supervisors experience their supervisory relationships, how supervisors conceptualize hope as it relates to supervision, how supervisors express hope for their supervisees, and how supervisors promote hope within supervision. Semi-structured interviews were conducted with between 3 to 15 individuals recruited from counseling psychology …

Perspectives On Insecticide Resistance Management: Past, Present, And Future, Jacob Nikodym

Doctor of Plant Health Program: Dissertations and Student Research

The use of chemical products to control arthropod pests has occurred for thousands of years, beginning with the use of inorganic products in ancient cultures, and progressing to the development of synthetic insecticides beginning in the early 20^th century. As these chemicals have imposed selection pressure on insects, the insects have adapted to this pressure, leading to the development of insecticide resistance. Since it was first reported in 1914, insecticide resistance has grown to be a major concern facing agricultural production, as each insecticide chemistry introduced is impacted by the evolution of resistance.

In the latter half of the …

Considerations For Science Communications In A Changing Media Landscape, Emily Stine

Doctor of Plant Health Program: Dissertations and Student Research

Technology development has radically shaped science communication techniques. Science communicators should be prepared to face these changes as they provide valuable new methods for increased engagement. Currently, communicators rely on deficit models (top-down transmission) and dialogic models (bottom-up transmission) to present information. The decision on which model to use is reliant upon the communicator’s skill level and impression of the relationship between scientists and the general public. Developing effective communication relies on communicators determining goals (long-term aspirations) and objectives (short-term aspirations) while maintaining a clear view of the public’s attitudes and evaluation frames. The tools available to science communicators and …

Investigating The Role Of Spiders In Integrated Pest Management For Biological Control Of Nebraska Crop Pests, Samantha Daniel

Department of Entomology: Dissertations, Theses, and Student Research

As generalist predators, spiders are capable of fulfilling a wide variety of ecological niches allowing them to intercept and prey upon an array of insect species. This characteristic could be particularly advantageous within agricultural ecosystems. This project sought to reveal the composition and abundance of spider communities within cornfields in western Nebraska and the impact of agronomic practices on those communities as well as determine the potential for spider predation upon two key pests of corn. Spiders were collected from eight corn fields from May to August 2017 and four corn fields from May to August 2018. Additionally, the populations …

Characterizing The Susceptibility And Biological Fitness Of Nebraska Western Corn Rootworm Populations To Pyramided Plant-Incorporated Protectants, Jordan D. Reinders

Department of Entomology: Dissertations, Theses, and Student Research

The western corn rootworm (WCR), Diabrotica virgifera virgifera LeConte, is a pest of field corn, Zea mays L., across the United States (U.S.) Corn Belt. Transgenic corn expressing two or more insecticidal proteins (‘pyramid’) derived from Bacillus thuringiensis Berliner (Bt) is a common management strategy employed in areas of continuous corn production. The newest rootworm-Bt pyramid registered in the U.S. is SmartStax^® PRO, which contains two rootworm-Bt proteins (Cry3Bb1, Cry34/35Ab1) and DvSnf7 dsRNA. With the pending commercialization of SmartStax^® PRO, understanding the current susceptibility of Nebraska WCR populations to the Cry3Bb1 + Cry34/35Ab1 pyramid (SmartStax^®) and …

Risk-Based Evaluation Of Treatments For Water Used At A Pre-Harvest Stage To Mitigate Microbial Contamination Of Fresh Raspberry In Chile, Constanza Avello Lefno

Department of Food Science and Technology: Dissertations, Theses, and Student Research

The global agricultural sectors are facing challenges of providing food for a rapidly growing population while still meeting appropriate food quality and safety standards. Chile, a South American country with great climatic and soil diversity, is positioned among the top ten agricultural exporters in the world.

Berries are considered highly prioritized produce in terms of microbiological hazards. The work presented in this thesis primarily focuses on the control of microbial contamination in water used at a pre-harvest stage, for enhanced quality and safety of raspberry products in Chile destined for export.

Two studies were conducted to achieve the goals. In …

Conceptual Framework Linking Resource Size And Recreational Use, Derek Kane

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

Participation in recreational activities at natural resource systems is important to many people. However, the use of these resource systems can cause negative social and ecological impacts. To manage the potential negative impacts of resource use, natural resource managers must have the ability to quantify and monitor the amount of use that is occurring. Unfortunately, it is difficult and costly to quantify and monitor resource system use. Natural resource management would benefit from uncovering a simple, easily accessible metric that could predict resource system use. The size of a resource system is related to social and ecological aspects of the …

Production, Evaluation, And Selection Of Elite Quality Protein Popcorn (Qpp) Hybrids, Leandra Marshall Parsons

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

In 2017, twelve Quality Protein Popcorn (QPP) inbred lines were developed and selected as premier dent by popcorn crosses fit for hybridization and testing. These QPP inbred lines were derived from specific Quality Protein dent Maize (QPM) by ConAgra Brands® popcorn line crosses to produce high lysine, vitreous popcorn lines capable of near-equal popping characteristics compared to the original popcorn parents. The QPP hybridization project commenced in the summer of 2018 utilizing these 12 inbred QPP lines and crossing them in a full diallel. Since then, the production of QPP hybrids has employed a diverse set of selection factors evaluating …

The Effect Of Anionic Surfactants On Herbicide Mixtures And Solutions, Ely Daniel Anderson

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

Herbicide mixtures are popular for farmers to delay the evolution of herbicide-resistant biotypes from occurring and control existing herbicide-resistant weeds. Glufosinate is a contact herbicide that has been observed as a mixture partner with many herbicides. In many cases, antagonistic interactions have occurred when using glufosinate in mixture with other herbicides. The antagonistic interactions have resulted in applications with incomplete weed control. Adjuvants have been known to impact an herbicide application by increasing herbicide penetration, spreadability, and efficacy. Adjuvants added to glufosinate mixtures can impact spray applications and increase weed control. The objectives of this research were: (1) investigate the …

Gray Wolves, Eric Gese, John P. Hart, Patricia Terletzky

Wildlife Damage Management Technical Series

Wolf conflicts are primarily related to predation on livestock, pets and other domestic animals, as well as their direct and indirect impacts on native ungulates (i.e., big game). Economic losses vary widely with some livestock producers facing high levels of depredation in some areas. This publication focuses on wolf ecology, damage, and management, particularly as it relates to wolf depredation on livestock and other conflicts with people.

Wolves and people share the same environments more than people realize. In the U.S., wolves are not confined to wilderness areas. Though curious, wolves generally fear people and rarely pose a threat to …

The Effect Of Agkistrodon Contortrix And Crotalus Horridus Venom Toxicity On Strike Locations With Live Prey., Chase Giese

Honors Program: Senior Projects (Public)

This paper aims to uncover if there is a significant difference in the strike location of snake species that have different values of LD50% venom. It is thought that most snakes strike their prey in the anterior (head) area in order for their venom to work quicker in killing them. Venom toxicity is measured by its LD50% value, which is the amount of venom, in mg/kg, to kill 50% of a test population. The Copperhead has an LD50% value of 10.9 mg/kg, and the Timber Rattlesnake has an LD50% value of 1.64 mg/kg. The hypothesis was that if venom toxicity …