Digital Commons Network^™

Chromosome-Level Thlaspi Arvense Genome Provides New Tools For Translational Research And For A Newly Domesticated Cash Cover Crop Of The Cooler Climates, Adam Nunn, Isaac Rodríguez-Arévalo, Zenith Tandukar, Katherine Anna Frels, Adrián Contreras-Garrido, Pablo Carbonell-Bejerano, Panpan Zhang, Daniela Ramos Cruz, Katharina Jandrasits, Christa Lanz, Anthony Brusa, Marie Mirouze, Kevin Dorn, David W. Galbraith, Brice A. Jarvis, John C. Sedbrook, Donald L. Wyse, Christian Otto, David Langenberger, Peter F. Stadler, Detlef Weigel, M. David Marks, James A. Anderson, Claude Becker, Ratan Chopra

Department of Agronomy and Horticulture: Faculty Publications

Thlaspi arvense (field pennycress) is being domesticated as a winter annual oilseed crop capable of improving ecosystems and intensifying agricultural productivity without increasing land use. It is a selfing diploid with a short life cycle and is amenable to genetic manipulations, making it an accessible field-based model species for genetics and epigenetics. The availability of a high-quality reference genome is vital for understanding pennycress physiology and for clarifying its evolutionary history within the Brassicaceae. Here, we present a chromosome-level genome assembly of var. MN106-Ref with improved gene annotation and use it to investigate gene structure differences between two accessions (MN108 …

Small Extracellular Vesicles In Milk Cross The Blood-Brain Barrier In Murine Cerebral Cortex Endothelial Cells And Promote Dendritic Complexity In The Hippocampus And Brain Function In C57bl/6j Mice, Fang Zhou, Pearl Ebea, Ezra Mutai, Haichuan Wang, Sonal Sukreet, Shya Navazesh, Haluk Dogan, Wenhao Li, Juan Cui, Peng Ji, Denise M.O. Ramirez, Janos Zempleni

Department of Nutrition and Health Sciences: Faculty Publications

Human milk contains large amounts of small extracellular vesicles (sEVs) and their microRNA cargos, whereas infant formulas contain only trace amounts of sEVs and microRNAs. We assessed the transport of sEVs across the blood-brain barrier (BBB) and sEV accumulation in distinct regions of the brain in brain endothelial cells and suckling mice. We further assessed sEV-dependent gene expression profiles and effects on the dendritic complexity of hippocampal granule cells and phenotypes of EV depletion in neonate, juvenile and adult mice. The transfer of sEVs across the BBB was assessed by using fluorophore-labeled bovine sEVs in brain endothelial bEnd.3 monolayers and …

Intercontinental Movement Of Highly Pathogenic Avian Influenza A(H5n1) Clade 2.3.4.4 Virus To The United States, 2021, Sarah N. Bevins, Susan A. Shriner, James C. Cumbee Jr., Krista E. Dilione, Kelly E. Douglass, Jeremy W. Ellis, Mary Lea Killian, Mia K. Torchetti, Julianna B. Lenoch

United States Department of Agriculture Wildlife Services: Staff Publications

We detected Eurasian-origin highly pathogenic avian influenza A(H5N1) virus belonging to the Gs/GD lineage, clade 2.3.4.4b, in wild waterfowl in 2 Atlantic coastal states in the United States. Bird banding data showed widespread movement of waterfowl within the Atlantic Flyway and between neighboring flyways and northern breeding grounds.

Targeting Inflammation In Heat-Stressed Wethers Improves Growth And Efficiency And Alters Body Composition: A Brief Exploration And Application Of Extension Principles, Micah Samuel Most

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

The objective of our first study was to determine how administering anti-inflammatory dexamethasone and ω-3 polyunsaturated fatty acid (PUFA)-rich fish oil affects growth efficiency and body composition in heat-stressed finishing lambs. Commercial wethers were randomly assigned to be fed under heat stress (35-40 ℃) or thermoneutral (19 ℃, n = 10) conditions for 30 d, and controls were pair-fed to eliminate differential feed intake. Heat-stressed wethers were randomly assigned to receive clinical-dose dexamethasone IM injections every 72 h, twice daily fish oil capsule oral boluses, or placebos. Heat stress decreased (P < 0.05) growth and efficiency, but dexamethasone and fish oil supplementation recovered these performance measures. Heat stress also decreased (P < 0.05) predictive body composition metrics that were at least partially improved by administration of dexamethasone and fish oil. Proximate analyses of muscles showed that heat stress decreased (P < 0.05) percentage of protein and increased (P < 0.05) percentage of intramuscular fat, neither of which was improved by dexamethasone or fish oil. Immunohistochemistry revealed that heat stress decreased (P < 0.05) myoblast differentiation and muscle fiber size, but anti-inflammatory supplementation recovered differentiation only. Plasma IGF-1 concentrations were not different among groups throughout the study. These findings demonstrate how heat stress-induced inflammation contributes to impaired growth, efficiency, and body composition observed in heat-stressed feeder lambs. However, targeting inflammation with dexamethasone or fish oil recovers many of these deficits.

The Cooperative …

Evaluation Of Corn Processing Method And Sweet Bran Inclusion On Beef Cattle Performance And Nutrient Digestion And Individual Sweet Bran Components On Nutrient Digestion, Rebecca L. Sjostrand

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

One feedlot trial (Exp. 1) and one digestion trial (Exp. 2) were conducted to evaluate the interaction of corn processing method and Sweet Bran inclusion on nutrient digestion, ruminal fermentation parameters, and feedlot performance. In Exp. 1 when no Sweet Bran was fed, cattle fed steam-flaked corn (SFC) had greater ADG, HCW and a 12.4% improvement in feed efficiency compared to cattle fed a high-moisture corn/ dry-rolled corn (HMC/DRC) blend. However, as Sweet Bran increased in the diet to 40%, cattle fed HMC/DRC had greater improvements in ADG and HCW than cattle fed SFC resulting in similar performance at 40% …

Land-Use And Potential Effects On The Western Tiger Salamander (Ambystoma Mavortium), Emily Zappia

Department of Environmental Studies: Undergraduate Student Theses

Humans have altered 40% of land across the globefor cropland, rangeland, and pastureland, which, in turn, affects amphibious species like the western tiger salamander (Ambystoma mavortium; WTS)and their viable habitats.Since intensive agriculture increased throughout eastern Nebraska in the 1980’s, the distribution ofA. mavortiumhas declined and the species can no longer be found in the southeast corner of the state, while populations are thriving in the pastures of the Sandhills region. Here we explorethe potential factors contributing to the decline ofA. mavortiumthrough the analysis of climaticand soil characteristic data across the geographic distribution of WTS. Data indicated that precipitation rates, soil …

Design Of Path Correction For Improved Gait Rehabilitation, Zvonimir Pusnik

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

Following a serious neurological injury or disease, such as a spinal cord injury or multiple sclerosis, many patients develop impaired gait (the ability to walk). There are many different pieces of equipment to help rehabilitate people with impaired gait, ranging from over ground walking with exoskeletons to treadmills with partial bodyweight support. Since the 1990s and 2000s, elliptical trainers have entered the rehabilitative field as a machine with low impact forces and gait-like motion. This led researchers at Madonna Rehabilitation Hospitals to collaborate with the University of Nebraska-Lincoln to create the Intelligently Controlled Assistive Rehabilitation Elliptical (ICARE).

While the ICARE …

Teaching Pedagogy Of Online Vs In-Person Learning: Relative To Osteology, Erik M. Schulz

Department of Anthropology: Theses and Student Research

With the COVID-19 global pandemic and the increasing need for a better way to teach on a global scale, this study focuses on a possible alternative to standard teaching that would address these issues. This research study examines the effectiveness of using 3D-scanned images vs cast bones in teaching human osteology. There are two main teaching concepts examined: the first examines the pedagogy of teaching and assessing if a 3D or online virtual classroom assessment compares favorably to a more traditional method of teaching osteology and other similar courses in a hands-on setting. The second consideration is to assess the …

Outdoor Play In Preschool Children: Parent Attitudes And Loose Part Play In Urban Settings, Ann Spilker

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

Outdoor play is an important aspect of young children’s health social-cognitive development. However, play in natural environments is declining due to urbanization and various safety concerns. Many urban preschools have outdoor play spaces that lack natural elements that stimulate children’s autonomy, creativity, and imaginative play. Furthermore, parents who find outdoor environments intimidating and fraught with danger limit young children’s outdoor experiences that inhibit their motor fitness, socialization with peers, and ecological awareness. Two qualitative case studies examined preschool children’s outdoor play. Study one focused on preschool children’s loose parts play in urban settings while study two examined parent’s attitudes towards …

Identification Of A Potential Pathway Of The Exotic Black Weevil (Coleoptera: Curculionidae) In South Korea, Sohee Kim, Seon Woo Lee, Soo-Jung Suh

Insecta Mundi

The black weevil, Aclees taiwanensis Kôno (Coleoptera: Curculionidae), is one of the primary pests of fig trees in southeastern Asia and southern Europe. Thought to be of subtropical and tropical Asian origin, including China, the weevil was first found in southern areas of South Korea in July 2020. Subsequently, it was found in the following five cities: Haenam, Hampyeong, Jindo, Sinan, and Tongyeong (RDA 2020). Attempts to trace a possible pathway for the exotic black weevil suggested that this species probably followed pathways of illegal importation of infested plants from Taiwan and was unintentionally introduced into South Korea based on …

A Fusion Of Microscopy Technique In Human Coprolite Analysis: The Dyck Cliff Dwelling And The Arid West Cave, William Darwin Hertzel

Department of Anthropology: Theses and Student Research

In the two papers that comprise this thesis, I will discuss the dietary complexes of two separate Southwestern archaeological sites excavated in the 20th century through the medium of coprolite analysis. The fusion of microscopy techniques in this project expands the capability of observation and identification of microremains and their use in reconstructing the dietary habits of past peoples. I intend to highlight the value of integrating three separate methods of microscopy for the identification of diet and any practices for using that information to narrow down a coprologically unstudied site location for samples of lost provenience. Additionally, this project …

Evaluating The Microbial Quality And Use Of Antimicrobials In Raw Pet Foods, Leslie Pearl Cancio

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

Raw meat-based diets (RMBDs) are emerging pet foods that pose food safety risks because of the potential presence of pathogens that could cause illness to humans. In this research, the microbial quality of select RMBD products sold by pet food companies online and the use of chemical antimicrobials to reduce the microbial load in chicken liver, a common RMBD ingredient, were evaluated.

Ground meat blends and livers from four animal species (beef, pork, chicken, turkey) were purchased from four online companies that delivers directly to consumers through parcel businesses. Products were procured at three different times during one year and …

Fifteen Poems, Caleb Petersen

Department of English: Dissertations, Theses, and Student Research

FIFTEEN POEMS is a thesis consisting of a critical introduction on the development of my understanding of craft, the poetic influences which have shaped my poetry, as well as a collection of poems. The essay addresses both the form and content of the collection, as well as my history with poetry. It provides details about the process of creating this collection, and it portrays some of the vision that motivates it. The poetry which follows is a reflection on myself, my body, and my landscape, as I ask the question, who am I in this place? Situated in Lincoln, Nebraska, …

Assessment Of Manure Treatment Technology Adoption And Feedlot Runoff Monitoring Opportunities, Juan Carlos Ramos Tanchez

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

Livestock products contain valuable nutrients that enhance human health, and their production generates positive local and national economic impacts. The livestock sector also deals with large quantities of environmentally important nutrients in manure. The purpose of this thesis is to further the aims of researchers and educators working at the intersection of livestock production and the environment to identify and promote best practices for livestock production and manure management that are economically and environmentally sustainable.

The second chapter explored options to evaluate nutrient flows in feedlot runoff at the pen scale. Pen scale monitoring is an important consideration for research …

Characterizing And Predicting Human Visual Perception Of Unmanned Aerial Vehicle Gestures, Paul Fletcher

School of Computing: Dissertations, Theses, and Student Research

Unmanned Aerial Vehicles (UAVs) are being used in public domains and hazardous environments where effective communication strategies are critical. UAV gesture techniques have been shown to communicate meaning to human observers and may be ideal in contexts that require lightweight systems such as unmanned aerial flight, however, this work may be limited to an idealized range of viewer perspectives. As gesture is a visual communication technique it is necessary to consider how the perception of a robot gesture may suffer from obfuscation or self-occlusion from some viewpoints. This thesis presents the results of three online user-studies that examine participants’ ability …

Spatial And Temporal Distribution And Habitat Selection Of Native Yellowstone Cutthroat Trout And Nonnative Utah Chub, Darcy K. Mccarrick, Jeffrey C. Dillon, Brett High, Michael C. Quist

United States Geological Survey: Staff Publications

Henrys Lake, Idaho, is a renowned trophy trout fishery that faces an uncertain future following the establishment of Utah Chub (UTC) Gila atraria. Utah Chub were first documented in the lake in 1993 and have become abundant over the past two decades. Little is known about the ecology of UTC, but they typically have negative effects on salmonids in systems where they have been introduced. We sought to fill knowledge gaps in UTC ecology and provide insight on potential interactions with Yellowstone Cutthroat Trout (YCT) Oncorhynchus clarkii bouvieri. Ninety-four YCT and 95 UTC were radio-tagged in spring 2019 …

Individual Trophic Niche Specialization In American Beaver (Castor Canadensis), Jimmy Taylor, Robert Francis, Scott Rush, Bronson Strickland, Guiming Wang

United States Department of Agriculture Wildlife Services: Staff Publications

The American beaver (Castor canadensis) has been described as a choosy generalist at the species/population scale, yet observational studies have shown little variation in diet among individuals. We compared isotopic values of δ¹³C or δ¹⁵N taken from hair of 32 beaver, representing seven colonies in northern Alabama, USA to determine 1) if colonies of beaver show overlap in isotopic niche width as a result of the similar use of food resources and 2) if individual trophic niche specialization occurs within colonies. Total Trophic Niche Width varied across the wetland with the widest being twice …

Estimation Of Methane Emissions From Beef Cattle Manure In Nebraska, Noe Hernandez

Department of Civil and Environmental Engineering: Dissertations, Theses, and Student Research

The emission of methane from livestock production contributes to climate change. Cattle manure accounts for one-third of the total methane emission over the lifecycle of beef and dairy production and represents an opportunity to lower the environmental footprint of the beef industry. While models have been developed to estimate methane emissions from manure under certain types of manure storage methods, there is a lack of a user-friendly interface that agricultural or environmental engineers can use to estimate the methane emission from manure for specific regions. Therefore, the goal of this study was to build an interface to estimate methane emissions …

Europium-Doped Cerium Oxide Nanoparticles For Microglial Aβ Clearance And Homeostasis, Jatin Machhi, Pravin Yeapuri, Milica Markovic, Milankumar Patel, Wenhui Yan, Yaman Lu, Jacob D. Cohen, Mahmudul Hasan, Mai Mohamed Abdelmoaty, You Zhou, Huangui Xiong, Xinglong Wang, R. Lee Mosley, Howard E. Gendelman, Bhavesh D. Kevadiya

Nebraska Center for Biotechnology: Faculty and Staff Publications

Alzheimer’s disease (AD) is the most common neurodegenerative disorder. Pathologically, it is characterized by the deposition of amyloid beta (Aβ) plaques and presence of neurofibrillary tangles. These drive microglia neuroinflammation and consequent neurodegeneration. While the means to affect Aβ plaque accumulation was achieved how it affects disease outcomes remains uncertain. Cerium oxide (CeO₂) reduces Aβ plaques, oxidative stress, inflammation, and Alzheimer’s disease (AD) signs and symptoms. Specifically, CeO₂ nanoparticles (CeO₂NPs) induces free radical scavenging and cell protective intracellular signaling. This can ameliorate the pathobiology of an AD-affected brain. In order to investigate, CeO₂NPs …

Systemic Stress In Mid-Century American Military Service Members: The Impact Of Socioeconomic Status And Military Service Length On The Human Skeleton, Brianna L. Petersen

Department of Anthropology: Theses and Student Research

The purpose of this study is to identify how socioeconomic status (SES) and, separately, length of military service, may affect the human skeleton. Specifically, this study considers non-specific indicators of skeletal stress such as periosteal reactions, enamel defects, and skeletal porosity in a sample of World War II decedents. The Exact Logistic Regression test was used to examine the possible association between military service length and the presence of skeletal porosity and periosteal reaction, and Fisher’s Exact Test of Independence was used to evaluate the relationship between SES and presence of enamel defects, skeletal porosity, and periosteal reaction. In total, …

Editorial: Special Issue “Innovative Techniques And Approaches In The Control And Prevention Of Rabies Virus”, Amy T. Gilbert, Ryan M. Wallace, Charles E. Rupprecht

United States Department of Agriculture Wildlife Services: Staff Publications

Rabies is an ancient lethal scourge that has plagued humankind for centuries. Globally, 60,000 human deaths are estimated to occur each year from rabies virus (RABV) transmission in domestic dogs, mostly affecting children. While rabies is recognized as a neglected disease, there is cause for optimism in the context of growing global recognition, collaboration and commitment to advance a tripartite agenda to eliminate human deaths transmitted from rabid dogs by 2030, also known as “Zero By Thirty” (ZBT). Nevertheless, the ZBT goal must also confront competing challenge(s) of tracking and mitigating human morbidity and mortality during a global pandemic caused …

The Impact Of China's Environmental And Trade Policies On U.S. Plastic And Paper Waste Exports, Savant Nzayiramya, John C. Beghin

Honors Program: Senior Projects (Public)

This article documents major environmental and trade policy changes in China and their impact on plastic and paper waste trade between the U.S. and China and other trade partners. The article explains how U.S. plastic waste exports have been nearly annihilated by these policies. Paper waste trade is more resilient and has survived the policy shifts in China, although quite diminished.

Trout Responses To Stocking Rates And River Discharge Within A Southeastern U.S. Hydropeaking Tailwater, Jonathan J. Spurgeon, Joseph Kaiser, Christy Graham, Steve Lochmann

Nebraska Cooperative Fish and Wildlife Research Unit: Staff Publications

Freshwater fish populations often exist in systems characterized by novel ecological processes resulting from human alteration. Salmonid populations embedded within coldwater sections of warmwater rivers are spatially constrained by habitat availability. Tailwater fish contend with fluctuating river discharges and density-dependent processes associated with fish stocking and exploitation. Salmonid populations sustained through stocking versus natural reproduction may respond differently to changes in hydrologic patterns (e.g., hydropeaking) as well as declines in fish abundance. We assessed differences between stocked (Rainbow Trout Oncorhynchus mykiss) and naturalized (Brown Trout Salmo trutta) trout populations in Greers Ferry tailwater, Arkansas, regarding (1) spatial and …

Creating A Popular Science Collection To Support Interest, Research, And Curriculum At The University Of Nebraska–Lincoln Libraries, Casey Hoeve, Kiyomi Deards

University of Nebraska-Lincoln Libraries: Presentations

In 2016 the University of Nebraska–Lincoln Libraries opened the Adele Coryell Hall Learning Commons in the main library (Love Library) with the intention of creating an informal user space for study and social interactions. Within the Learning Commons, a popular science collection was curated based upon patron interest and to organize a scattered collection into a more discoverable location. The collection has been highly used by patrons, and new content is regularly added each year.

In addition to general interest, the popular science collection supports on-campus classes and colloquial talks. In this presentation, the history of the collection and which …

Spotted Knapweed (Centaurea Stoebe) Pollen Use-Availability By Bumble Bees In Western Montana, Rustin Bielski

RURALS: Review of Undergraduate Research in Agricultural and Life Sciences

Northwest Montana (United States) also known as the last best place, is one of the most pristine habitats for bumble bees, as well as other keystone pollinators. Though, due to anthropogenic influences, wildflower populations in recent years have been fragmented and captivated by exotic invasive plants, which will likely alter and reduce the fecundity of these pollinator species. In Montana, Centaurea stoebe (Spotted Knapweed) has been a very prolific non-native plant due to its ability to displace entire native plant populations. Pollen, due to its nutritional properties, is the most important resource to bumble bees. While some invasive forbs may …

Something Fishy In Seafood Trade?, Kathy Baylis, Lia Nogueira, Linlin Fan, Kathryn Pace

Cornhusker Economics

The safety of food imports continues to be in the spotlight. Globally, each year, contaminated food causes almost 1 in 10 people to fall ill and 420 thousand people to die (WHO, 2017). Protecting consumers from unsafe foods is complicated by the increased role of international trade in our food system. The U.S. Centers for Disease Control and Prevention found that disease outbreaks associated with imported food increased from 1996 to 2014, with fish and produce being the main culprits (Gould et al., 2017). For example, in 2019, two separate cases of tuna from Vietnam were found to have sickened …

Can We Use Antipredator Behavior Theory To Predict Wildlife Responses To High-Speed Vehicles?, Ryan B. Lunn, Bradley Blackwell, Travis L. Devault, Esteban Fernández-Juricic

United States Department of Agriculture Wildlife Services: Staff Publications

Animals seem to rely on antipredator behavior to avoid vehicle collisions. There is an extensive body of antipredator behavior theory that have been used to predict the distance/time animals should escape from predators. These models have also been used to guide empirical research on escape behavior from vehicles. However, little is known as to whether antipredator behavior models are appropriate to apply to an approaching high-speed vehicle scenario. We addressed this gap by (a) providing an overview of the main hypotheses and predictions of different antipredator behavior models via a literature review, (b) exploring whether these models can generate quantitative …

Identification And Characterization Of Circular Rnas In Brassica Rapa In Response To Plasmodiophora Brassicae, Huishan Liu, Chinedu Charles Nwafor, Yinglan Piao, Xiaonan Li, Zongxiang Zhan, Zhongyun Piao

Center for Plant Science Innovation: Faculty Publications

Plasmodiophora brassicae is a soil-borne pathogen that attacks the roots of cruciferous plants and causes clubroot disease. CircRNAs are noncoding RNAs, widely existing in plant and animal species. Although knowledge of circRNAs has been updated continuously and rapidly, information about circRNAs in the regulation of clubroot disease resistance is extremely limited in Brassica rapa. Here, Chinese cabbage (BJN 222) containing clubroot resistance genes (CRa) against P. brassicae Pb4 was susceptible to PbE. To investigate the mechanism of cicRNAs responsible for clubroot disease resistance in B. rapa, circRNA-seq was performed with roots of ‘BJN 222’ at 0, 8, and 23 days …

A Natural History (Built To Be Seen), Austin Cullen, Austin Wray Cullen

School of Art, Art History, and Design: Theses and Student Creative Work

A Natural History (Built to be Seen) is a series of photographic observations of the spectacular and absurd ways the western natural world is presented in museums. The subjects of the photographs include displays from both the front-facing, visitor side of the museum, and the back, research-focused side of the museum. As someone who grew up visiting natural history museums, I've always been fascinated by the extravagant ways they framed the American landscape. Dramatic dioramas, interactive virtual experiences, and miniaturized landscapes all act as windows into the natural world. While this framing provides a guide for reading and understanding nature, …

Undergraduate Students’ Accuracy & Confidence In Detecting Errors In Biological Models Related To Gpa, Mckenna Elliott, Joseph Dauer, Carrie Clark, Mei Grace Behrendt

UNL Student Research Days Posters, Undergraduate

Research Questions 1. Does students’ abilities to Accurately detect errors relate to their GPA? 2. Which concepts affect student ability to Accurately and Confidently detect errors?

GPA was positively related to accuracy but was unrelated to confidence (Fig. 1)

Subject areas affected students’ accuracy and confidence § Students were more accurate on ecology & evolution models (Fig. 2) § Students were more confident in ecology models and less confident in physiology models (Fig. 2)

Variation in student ability and subject area competency can provide teachers with places to focus and improve science understanding.

Similar to the work of Clark et …