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Dna Methylation Networks Underlying Mammalian Traits, Amin Haghani

Department of Animal Science: Faculty Publications

INTRODUCTION: Comparative epigenomics is an emerging field that combines epigenetic signatures with phylogenetic relationships to elucidate species characteristics such as maximum life span. For this study, we generated cytosine DNA methylation (DNAm) profiles (n = 15,456) from 348mammalian species using amethylation array platform that targets highly conserved cytosines.

RATIONALE: Nature has evolved mammalian species of greatly differing life spans. To resolve the relationship ofDNAmwith maximum life span and phylogeny, we performed a largescale cross-species unsupervised analysis. Comparative studies in many species enables the identification of epigenetic correlates of maximum life span and other traits.

RESULTS: We …

Universal Dna Methylation Age Across Mammalian Tissues, A. T. Lu, Jessica Lynn Petersen, Steve Horvath, Et Al.

Department of Animal Science: Faculty Publications

Aging, often considered a result of random cellular damage, can be accurately estimated using DNA methylation profiles, the foundation of pan-tissue epigenetic clocks. Here, we demonstrate the development of universal pan-mammalian clocks, using 11,754 methylation arrays from our Mammalian Methylation Consortium, which encompass 59 tissue types across 185 mammalian species. These predictive models estimate mammalian tissue age with high accuracy (r > 0.96). Age deviations correlate with human mortality risk, mouse somatotropic axis mutations and caloric restriction. We identified specific cytosines with methylation levels that change with age across numerous species. These sites, highly enriched in polycomb repressive complex 2-binding locations, …

Indigenous Lakadong Turmeric Of Meghalaya And Its Future Prospects, Manjit Kumar Ray, Dipak K. Santra, Piyush Kumar Mishra, Saurav Das

Department of Agronomy and Horticulture: Faculty Publications

Turmeric (Curcuma longa) has long been used in traditional Indian medicine. India accounts for 80% of total global turmeric production. Lakadong turmeric gets its name from the tiny village of Lakadong, which is located in the foothills of the Jaintia Hills in Meghalaya, India. It is known for having a high curcumin content of more than 7%, as opposed to 2 - 4% in regular varieties. The tribes of this region brought Lakadong turmeric from the forest and domesticated it for medicinal purposes centuries ago. Growth in local coal industries and a gradual decline in the market have …

Functional Connectivity Varies Across Scales In A Fragmented Landscape, Kate I. T. Bird, Daniel R. Uden, Craig R. Allen

School of Natural Resources: Faculty Publications

Species of different sizes interact with the landscape differently because ecological structure varies with scale, as do species movement capabilities and habitat requirements. As such, landscape connectivity is dependent upon the scale at which an animal interacts with its environment. Analyses of landscape connectivity must incorporate ecologically relevant scales to address scale-specific differences. Many evaluations of landscape connectivity utilize incrementally increasing buffer distances or other arbitrary spatial delineations as scales of analysis. Instead, we used a mammalian body mass discontinuity analysis to objectively identify scales in the Central Platte River Valley (CPRV) of Nebraska, U.S.A. We implemented a graph-theoretic network …

Influence Of Ultrasound Machine Settings On Quantitative Measures Derived From Spatial Frequency Analysis Of Muscle Tissue, Scott K. Crawford, Stephanie A. Kliethermes, Bryan C. Heiderscheit, Greg Bashford

Department of Agricultural and Biological Systems Engineering: Faculty Publications

Background Ultrasound is a powerful tool for diagnostic purposes and provides insight into both normal and pathologic tissue structure. Spatial frequency analysis (SFA) methods characterize musculoskeletal tissue organization from ultrasound images. Both sonographers in clinical imaging and researchers may alter a minimized range of ultrasound settings to optimize image quality, and it is important to know how these small adjustments of these settings affect SFA parameters. The purpose of this study was to investigate the effects of making small adjustments in a typical default ultrasound machine setting on extracted spatial frequency parameters (peak spatial frequency radius (PSFR), Mmax, Mmax%, and …

Machine Learning Techniques To Predict The Air Quality Using Meteorological Data In Two Urban Areas In Sri Lanka, Lakindu Mampitiya, Namal Rathnayake, Lee P. Leon, Vishwanadham Mandala, Hazi Md. Azamathulla, Sherly Shelton, Yukinobu Hoshino, Upaka Rathnayake

Department of Earth and Atmospheric Sciences: Faculty Publications

The effect of bad air quality on human health is a well-known risk. Annual health costs have significantly been increased in many countries due to adverse air quality. Therefore, forecasting air quality-measuring parameters in highly impacted areas is essential to enhance the quality of life. Though this forecasting is usual in many countries, Sri Lanka is far behind the state-of-the-art. The country has increasingly reported adverse air quality levels with ongoing industrialization in urban areas. Therefore, this research study, for the first time, mainly focuses on forecasting the PM₁₀ values of the air quality for the two urbanized areas …

Effect Of Cutting Management On The Forage Production And Quality Of Tepary Bean (Phaseolus Acutifolius A. Gray), Travis W. Witt, Brian K. Northup, Timothy G. Porch, Santos Barrera, Carlos A. Urrea

Department of Agronomy and Horticulture: Faculty Publications

Tepary bean (Phaseolus acutifolius A. Gray) is an underutilized drought tolerant annual legume, originating from the Sonoran Desert, that may be a beneficial forage/hay for beef cattle in the Southern Great Plains of the US (SGP). The SGP has erratic rainfall and periods of intermittent drought exacerbated by high summer temperatures. In 2020 and 2021, a split-plot design was used to evaluate 13 genotypes of tepary bean and a forage soybean (control) at El Reno, OK, USA to compare production of plant biomass and forage nutritive value parameters under seven harvest regimes. Genotypes were used as the main plot …

Ten Questions Concerning Smart And Healthy Built Environments For Older Adults, Sanjay Kumar, Samuel H. Underwood, Julie L. Masters, Natalie A. Manley, Iason Konstantzos, Josephine Lau, Ryan Haller, Lily M. Wang

Durham School of Architectural Engineering and Construction: Faculty Publications

In the past decade, the term ‘global aging’ has gained much attention among researchers, policymakers, civil societies, and governments worldwide. The continuous decline in fertility rates and increased life expectancy have resulted in an ongoing demographic transition where the share of adults aged 65 or older is increasing and outnumbering children younger than five years. In the United States and other developed countries, this rapid demographic transition is expected to continue to strain the existing health infrastructure as it becomes increasingly challenging to ensure healthy living environments for older adults. The ten questions and answers in this paper have been …

Temporal Transcriptomic Profiling Elucidates Sorghum Defense Mechanisms Against Sugarcane Aphids, Heena Puri, Sajjan Grover, Lise Pingault, Scott E. Sattler, Joe Louis

Department of Entomology: Faculty Publications

Background The sugarcane aphid (SCA; Melanaphis sacchari) has emerged as a key pest on sorghum in the United States that feeds from the phloem tissue, drains nutrients, and inflicts physical damage to plants. Previously, it has been shown that SCA reproduction was low and high on sorghum SC265 and SC1345 plants, respectively, compared to RTx430, an elite sorghum male parental line (reference line). In this study, we focused on identifying the defense-related genes that confer resistance to SCA at early and late time points in sorghum plants with varied levels of SCA resistance.

Results We used RNA-sequencing approach to …

Catalog Of The World Species Of Trichodesma Leconte, 1861 (Coleoptera: Ptinidae) And Associated Genera, Kyle E. Schnepp

Insecta Mundi

A catalog of the species of Trichodesma LeConte (Coleoptera: Ptinidae) for the world is provided, including synonyms and misspellings. Six additional genera, Anobiopsis Fall, Belemia Español, Nanodesma Zahradník, Nicobium LeConte, Trichobiopsis White, and Trichodesmina Español, are also cataloged for com­pleteness. The species name, author, year, and page number of description are given for each species, as well as references for combinations by different authors. The type depository is given when known, and followed by a “?” when unknown but suspected, and a general distribution is given by region of the world followed by country. Authorship of the genus Trichodesma in …

Biology Of The Sineguelas Leaf Beetle, Podontia Quatuordecimpunctata (L.) (Chrysomelidae: Galerucinae: Alticini), On Spondias Purpurea L. (Anacardiaceae) In The Philippines, Orlando A. Calcetas, Charles L. Staines, Caroline Simmrita Chaboo, Rachel Ann A. Anabo, Monalisa O. Recuenco

Insecta Mundi

Spondias purpurea L. (Anacardiaceae), native to the Neotropical region, is cultivated in the Phil­ippines for the edible fruits and the tree is economically significant. The adventive leaf beetle, Podontia quatuordecimpunctata (L.) (Chrysomelidae: Galerucinae: Alticini), has become a major defoliating pest of the tree in the country. The Philippines government has initiated study of the pest, now locally called the sineguelas leaf beetle (SLB). This paper reports the results of a one-year field study on the biology of SLB on S. purpurea (red sineguelas), in Batangas City, Philippines. The SLB eggs hatch in 5–7 days. The larval period is 14–16 …

The Mealybugs (Hemiptera: Coccoidea: Pseudococcidae) Of Egypt, Gregory A. Evans, S. Abd-Rabou

Insecta Mundi

The Egyptian fauna of mealybugs (Hemiptera: Coccoidea: Pseudococcidae) is reviewed and an illustrated key to the 30 genera and 54 species is provided. Phenacoccus madeirensis Green is reported for the first time in Egypt. A new genus, Ezzatacoccus Evans and Abd-Rabou, is described and illustrated with Amonostherium arabicum Ezzat, 1960 designated as its type species. Octococcus salicicola Priesner and Hosny, 1935 is reinstated as a valid taxon and transferred to Misericoccus Ferris, new combination. Ripersia cressae Hall is transferred to Maconellicoccus Ezzat, new combination and Planococcus lindingeri (Bodenheimer) is transferred back to Formicococcus Takahashi, revised status.

Flex-Ro: Development And Testing Of A Semi-Autonomous Robotic Planter, Ian Tempelmeyer

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

The need for more crop production with minimal negative environmental impact is a continuing pursuit around the world. As the population continues to increase at an exponential rate, the demand for food, fiber, fuel, and energy also increases. Robotics and automation are seen as one of the useful technology tools to increase field productivity. This work specifically focuses on addressing labor challenges for one of the most important field operations, planting. A robotic planter unit was designed as part of this work that mounted on unmanned ground vehicle (UGV) to perform autonomous planting operation in a 1 ha (2.5 acre) …

Auricularia Auricula Polysaccharides Attenuate Obesity In Mice Through Gut Commensal Papillibacter Cinnamivorans, Xin Zong, Hao Zhang, Luoyi Zhu, Edward C. Deehan, Jie Fu, Yizhen Wang, Mingliang Jin

Department of Nutrition and Health Sciences: Faculty Publications

Introduction: Auricularia auricula is a well-known traditional edible and medical fungus with high nutritional and pharmacological values, as well as metabolic and immunoregulatory properties. Nondigestible fermentable polysaccharides are identified as primary bioactive constituents of Auricularia auricula extracts. However, the exact mechanisms underlying the effects of Auricularia auricula polysaccharides (AAP) on obesity and related metabolic endpoints, including the role of the gut microbiota, remain insufficiently understood.

Methods: The effects of AAP on obesity were assessed within high-fat diet (HFD)-based mice through obesity trait analysis and metabolomic profiling. To determine the mechanistic role of the gut microbiota in observed anti-obesogenic …

Early Career Aquatic Scientists Forge New Connections At Eco-Das Xv, Olivia J. Graham, Alia Al-Haj, Eleanor C. Arrington, Emily R. Arsenault, Carolina C. Barbosa, Kadir Bice, Evie Brahmstedt, S. River D. Bryant, Xun Cai, Stacy Calhoun-Grosch, Joshua Culpepper, Katherine Dale, Derek J. Detweiler, Katlin D. Doughty, Kyle A. Emery, Kara Gadeken, Laura Griffiths, Atefeh Hosseini, Catriona Jones, Hadis Miraly, Alexander W. Mott, Karla Münzner, Igor Ogashawara, Carly R. Olson, Joseph S. Rabaey, Walter A. Rich, Phoenix A. Rogers, Meredith Evans Seeley, Lorena Selak, Qipei Shangguan, Kelsey J. Solomon, Xinyu Sun, Spencer J. Tassone, Audrey Thellman, John Tracey, Jilian Xiong, Tianfei Xue

School of Natural Resources: Faculty Publications

A sense of kuleana (personal responsibility) in caring for the land and sea. An appreciation for laulima (many hands cooperating). An understanding of aloha ’āina (love of the land). The University of Hawai’i at Manoa hosted the 2023 Ecological Dissertations in Aquatic Sciences (Eco-DAS) program, which fostered each of these intentions by bringing together a team of early career aquatic ecologists for a week of networking and collaborative, interdisciplinary project development (Fig. 1).

Identification Of Structural Brain Alterations In Adolescents With Depressive Symptomatology, J. Bashford‑Largo, R. James R. Blair, Karina S. Blair, Matthew Dobbertin, Ahria Dominguez, Melissa Hatch, Sahil Bajaj

Center for Brain, Biology, and Behavior: Faculty Publications

Introduction: Depressive symptoms can emerge as early as childhood and may lead to adverse situations in adulthood. Studies have examined structural brain alternations in individuals with depressive symptoms, but findings remain inconclusive. Furthermore, previous studies have focused on adults or used a categorical approach to assess depression. The current study looks to identify grey matter volumes (GMV) that predict depressive symptomatology across a clinically concerning sample of adolescents.

Methods: Structural MRI data were collected from 338 clinically concerning adolescents (mean age = 15.30 SD=2.07; mean IQ = 101.01 SD=12.43; 132 F). Depression symptoms were indexed via the Mood …

A Manual For The Recovery Of Cbrne (Chemical, Biological, Radiological, Nuclear, And Explosive) Contaminated Human Remains, Patrick Barchett

Department of Anthropology: Theses and Student Research

Despite many international agreements and treaties prohibiting the use of CBRNE (Chemical, Biological, Radiological, Nuclear, and Explosive) weaponry, the proliferation of contaminated human remains displays the historic and continued use of inhumane war efforts. Due to the complications of recovery, contaminated human remains are often left unrecovered and unidentified. This thesis works to create a framework for the recovery of contaminated human remains for organizations with a focus on creating safe and sustainable working environments for those conducting the recovery. Much of this thesis assumes the remains are being recovered from interred mass graves. This thesis provides an introduction to …

Lunchbox Hydroponics, Stacy A. Adams

Department of Agronomy and Horticulture: Faculty Publications

Growing plants with hydroponics is less complicated than it may appear when the fundamentals of the system are understood. This publication provides instruction on the construction of a simple hydroponic prototype suitable for school or youth education programs. The fundamentals of hydroponics, basic design of a solution system, seed starting, creating a nutrient solution, and plant care are explored through this engaging project. This prototype can successfully be used to grow small edible and herb plants in the classroom or at home.

Wild Bee Utilization Of Engineered Pollinator Habitat In Eastern Nebraska Agroecosystems, Shianne Lindsay

Department of Entomology: Dissertations, Theses, and Student Research

Habitat loss is a leading cause of biodiversity decline globally. Further, loss of natural and semi-natural habitat is a major factor contributing to declines in wild pollinator populations. Among intensive agroecosystems in the Midwestern United States, corn, soy, and small grain fields dominate the landscape and leave limited space available for forb-rich habitat that supports diverse pollinator assemblages to exist and thrive. There are numerous barriers and challenges to integrating pollinator habitat into such agroecosystems and quantitative assessments of impacts on pollinator communities are largely lacking. The establishment of high-quality pollinator habitat can provide both high flower abundance and species …

Growth And Emergent Functionalities Of Oxide Thin Films Utilizing Interface Engineering, Detian Yang

Department of Physics and Astronomy: Dissertations, Theses, and Student Research

Complex oxide interfaces have offered intriguing novel emergent phenomena and multiple functionalities through interfacial reconstructions of spin, orbital, charge, and lattice degrees of freedom. Interface engineering via manipulating interfacial interaction, defects and multiple interfacial quantum charges and orders constitutes the essential method and technique to achieve desired functionalities in oxide heterostructures. In this thesis, shown are two examples of utilizing interfacial reconstruction and interfacial strain engineering to achieve intrinsic exchange bias and realize epitaxial growth of mixed-valence hexagonal manganite thin films, respectively.

Firstly, we demonstrated intrinsic exchange bias induced by interfacial reconstruction in Ni_xCo_yFe_3-x-yO …

The Perceptions Of Psycap Growth Among College Student Leaders Who Mentor, James Lee

Department of Agricultural Leadership, Education, and Communication: Dissertations, Theses, and Student Research

The purpose of this cross-sectional study is to examine the perceptions of Psychological Capital (PsyCap) growth among college student leaders who mentor. Recent research documented a positive association between mentoring and the mentee’s PsyCap growth, yet little is known about how mentoring impacts the mentor’s PsyCap. Additionally, though PsyCap has been researched considerably in the last decade, little is known about both the antecedents of PsyCap and the social mechanisms that contribute to the growth of PsyCap. This study addresses these gaps and examines the influence of mentoring for leadership development on the mentors’ perceptions of PsyCap growth. There are …

Examining Potential Trade-Offs Between Pest Management And Pollination To Sunflower Production In Nebraska, Luis Ochoa Cadena

Department of Entomology: Dissertations, Theses, and Student Research

Sunflower (Helianthus annuus) is cultivated for oil and seed production worldwide, and the United States produces 2.5% of the world’s oilseed sunflower primarily grown in the Great Plains. In 2022, oilseed and confectionary U.S. sunflower production increased by 48 and 44%, respectively, compared to last year's records. However, sunflower production can be seriously compromised by insect pests. The red sunflower seed weevil (Smicronyx fulvus LeConte) is considered the most serious pests in North America and causes severe economic damage yearly. On the other hand, native bees contribute substantially to sunflower yield. Currently, insecticide applications are the primary tool to suppress …

Influence Of Overcooking On Food Digestibility And In Vitro Fermentation, Wensheng Ding

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

Areas of char or overcooking commonly appear in foods people consume. It has been reported that overcooked food is harmful to human health. However, little research exists on the effect of overcooking on in vitro protein and starch digestibility and gut microbial fermentation. This study aimed to reveal the connection between overcooking and in vitro protein and starch digestibility and gut microbial fermentation. In vitro protein digestibility of an overcooked ground beef patty was almost half that of a standard cooked sample (27 ± 2% versus 48 ± 6%, respectively; p = 0.02). Whole wheat bread protein digestibility was also …

Understanding The Factors Affecting Nebraskan Farmers’ And Landowners' Decision To Adopt Precision Agricultural Technologies And Programs, Corrin C. Winter

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

Advisors: Andrew Little, Christopher Chizinski

To gain insights into the challenges faced by Nebraska farmers and landowners when adopting precision agriculture technologies, I analyzed data collected from a 2022 survey involving 7,503 participants, consisting of producers and farmland owners from across the state of Nebraska. The primary objective was to provide valuable insights for agencies seeking to improve their precision agriculture and conservation outreach efforts for the benefit of conservation and Nebraskan farmers and landowners. This study aimed to understand key factors influencing adoption behaviors by evaluating the constraints to precision agriculture adoption, assessing the impact of producer and landowner …

Exploring Experimental Design And Multivariate Analysis Techniques For Evaluating Community Structure Of Bacteria In Microbiome Data, Kelsey Karnik

Department of Statistics: Dissertations, Theses, and Student Research

The gut microbiome plays a crucial role in human health, and by working collaboratively with microbiologists, we aim to further our understanding of the human gut and its impact on human health. Promoting a diverse microbiome is emphasized throughout microbiology literature, and involving a statistician in designing experiments to relate gut bacteria and some measured health outcome is crucial for ensuring valid and accurate results. By adopting new experimental design and analysis methods, researchers can begin to gain a deeper understanding of how the genetics of our food affect the composition of taxa within the gut microbiome. This dissertation is …

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

Department of Sociology: Dissertations, Theses, and Student Research

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 …

Assessment Of Integrated Nutrient Management Practices On Soil Health And Nitrogen Efficiency In Cropping Systems, María José Oviedo Ventura

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

Groundwater quality in Nebraska is threatened by non-point source contributions of nitrate-nitrogen, primarily by agricultural systems. Intensive crop and livestock production that neglects the value of manure in crop fertility plans can contribute to soil degradation and natural resource impairment. The purpose of this study is to evaluate opportunities to improve agricultural nutrient management throughout Nebraska by quantifying opportunities for manure distribution, evaluating soil health implications of organic and inorganic soil amendments, and assessing nutrient management practices focused on reducing nitrate leaching in agricultural soils.

This study described in Chapter 2 provides a spatial illustration of nitrogen and phosphorus balances …

Positioning Undergraduate Learning Assistants In Instruction: A Case Study Of The La Role In Active Learning Mathematics Classrooms At The University Of Nebraska–Lincoln, Rachel Funk

Department of Mathematics: Dissertations, Theses, and Student Research

Research suggests learning assistant (LA) programs can be a change lever to support the institutionalization of active learning in postsecondary education. Some research suggests LAs offer unique benefits for STEM courses, independent from other change levers, but more research needs to be done to understand how LAs support active learning classrooms, specifically in mathematics. Research on mathematics instruction and the use of reform resources suggests that the successful implementation of reforms is impacted by perceptions individuals hold about that resource, such as the LA role. Yet, there is little research about the LA role in mathematics, particularly where the instructor …

Prairie Protector: Student Development Of Systems Thinking Habits In The Context Of Agroecosystems, Erin Ingram, Jennifer Keshwani

Department of Agricultural and Biological Systems Engineering: Faculty Publications

Introduction: The Great Plains ecosystem offers an opportunity for young people to gain knowledge about intricate systems through practical learning. The spread of woody plants into grasslands, known as the “Green Glacier,” poses a risk to biodiversity and animal production. Although effective management strategies exist, some land managers are reluctant to use them. It is critical to cultivate a scientifically literate population that can think systematically and make informed decisions based on STEM principles to address such complex agroecosystem problems.

Methods: In this study, semi-structured focus group discussions with high school students were analyzed to determine whether Prairie …

Differential Membrane Binding Of Α/Β-Peptide Foldamers: Implications For Cellular Delivery And Mitochondrial Targeting, Tzong-Hsien Lee, James W. Checco, Tess Malcolm, Chelcie H. Eller, Ronald T. Raines, Samuel H. Gellman, Erinna F. Lee, W. Douglas Fairlie, Marie-Isabel Aguilar

Department of Chemistry: Faculty Publications

The intrinsic pathway of apoptosis is regulated by the Bcl-2 family of proteins. Inhibition of the anti-apoptotic members represents a strategy to induce apoptotic cell death in cancer cells. We have measured the membrane binding properties of a series of peptides, including modified α/β-peptides, designed to exhibit enhanced membrane permeability to allow cell entry and improved access for engagement of Bcl-2 family members. The peptide cargo is based on the pro-apoptotic protein Bim, which interacts with all anti-apoptotic proteins to initiate apoptosis. The α/β-peptides contained cyclic β-amino acid residues designed to increase their stability and membrane-permeability. Dual polarisation interferometry was …