Physical Sciences and Mathematics Commons^™

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 …

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 …

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 …

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 …

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) …

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 …

Short History Of The Unl Digital Commons, Paul Royster

University of Nebraska-Lincoln Libraries: Presentations

From 2005 through 2023, the UNL Digital Commons grew to be a leading example of an institutional repository. This presentation reports on personnel, history, strategy, and outstanding examples of series or contributors.

Announcement about the session:

UNL Digital Commons began in 2005 and grew into America’s 3rd-largest and most-trafficked institutional repository. Approaching 100 million downloads and spreading UNL scholarship and branding across the globe, the UNL Digital Commons boasts works from a wide variety of affiliated faculty, researchers, and students. Their participation is opening the dissemination of scholarship in radical and fundamental ways. In this session, Paul Royster traces this …

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, …

Roadway Floods And Their Associated Weather-Related Conditions: New Insights Using Cars 511 Data For State And Federal Highways In Nebraska, Usa, Logan R. Bundy, Mark Anderson, Clinton M. Rowe, Rezaul Mamood

Department of Earth and Atmospheric Sciences: Faculty Publications

This study examined roadway flooding event data provided by the Nebraska Department of Transportation via the Condition Acquisition Reporting System (CARS) 511 archive (2016–2021). With these data, a novel analysis was completed to further the understanding of where, when, and why (meteorologically) roadway flooding occurs on Nebraska state and federal highways. In the study period, 298 roadway floods occurred, with an annual median of 16 per year. There was a greater risk for roadway floods to transpire more frequently in eastern Nebraska, which was attributed to the spatial climatology of heavy rainfall and the higher density of roadways and rivers. …

Examining The Corn Seedling Emergence–Temperature Relationship For Recent Hybrids: Insights From Experimental Studies, Sahila Beegum, Charles Hunt Walne, Krishna N. Reddy, Vangimalla Reddy, Kambham Raja Reddy

Nebraska Water Center: Faculty Publications

Corn seedling emergence is a critical factor affecting crop yields. Accurately predicting emergence is crucial for precise crop growth and development simulation in process-based crop models. While various experimental studies have investigated the relationship between corn seedling emergence and temperature, there remains a scarcity of studies focused on newer corn hybrids. In the present study, statistical models (linear and quadratic functional relationships) are developed based on the seedling emergence of ten current corn hybrids, considering soil and air temperatures as influencing factors. The data used for model development are obtained from controlled soil plant atmospheric research chamber experiments focused on …

A Simple, Isotropic Depolarized Light Source, Keith Foreman, T. J. Gay

Department of Physics and Astronomy: Faculty Publications

Unpolarized light can be an important tool in optical experiments. Producing it, however, can prove to be a challenge. Natural sources of light that are commonly thought of as unpolarized are, in fact, either weakly polarized or not practical sources of light in a laboratory setting. Standard, commercially available light depolarizers produce unpolarized light only after the polarization state of the light across the diameter of the output beam has been averaged. Locally, such beams are highly polarized. In this work, we report a simple, low cost light depolarizer capable of producing light with a total polarization of less than …

Analysis Of Wastewater Samples To Explore Community Substance Use In The United States: Pilot Correlative And Machine Learning Study, Marie A. Severson, Sathaporn Onanong, Alexandra Dolezal, Shannon L. Bartelt-Hunt, Daniel D. Snow, Lisa M. Mcfadden

Nebraska Water Center: Faculty Publications

Background: Substance use disorder and associated deaths have increased in the United States, but methods for detecting and monitoring substance use using rapid and unbiased techniques are lacking. Wastewater-based surveillance is a cost-effective method for monitoring community drug use. However, the examination of the results often focuses on descriptive analysis.

Objective: The objective of this study was to explore community substance use in the United States by analyzing wastewater samples. Geographic differences and commonalities of substance use were explored.

Methods: Wastewater was sampled across the United States (n=12). Selected drugs with misuse potential, prescriptions, and over-the-counter drugs …

Review Of Harmful Algal Bloom Effects On Birds With Implications For Avian Wildlife In The Chesapeake Bay Region, Barnett A. Rattner, Catherine E. Wazniak, Julia S. Lankton, Peter C. Mcgowan, Serguei V. Drovetski, Todd A. Egerton

United States Geological Survey: Staff Publications

The Chesapeake Bay, along the mid-Atlantic coast of North America, is the largest estuary in the United States and provides critical habitat for wildlife. In contrast to point and non-point source release of pesticides, metals, and industrial, personal care and household use chemicals on biota in this watershed, there has only been scant attention to potential exposure and effects of algal toxins on wildlife in the Chesapeake Bay region. As background, we first review the scientific literature on algal toxins and harmful algal bloom (HAB) events in various regions of the world that principally affected birds, and to a lesser …

Investigating The Occurrence Of Blizzard Events Over The Contiguous United States Using Observations And Climate Projections, Ahmani Browne, Liang Chen

Department of Earth and Atmospheric Sciences: Faculty Publications

Over previous decades, the United States has been plagued by severe winter storms or blizzards, which caused millions of dollars in damages. However, the historical trend of blizzard events and the possible impacts of future global climate change on blizzard occurrences remain unclear. In this study, we analyzed historical blizzard occurrences using the observed storm event database, which shows that the Northern Plains, such as North Dakota, South Dakota, and Minnesota, had the most blizzard activities over the past 25 years. No significant trend in blizzard occurrence is found in those regions. When considering blizzards as compound events of strong …

Statistical And Machine Learning Approaches To Describe Factors Affecting Preweaning Mortality Of Piglets, Md Towfiqur Rahman, Tami M. Brown-Brandl, Gary A. Rohrer, Sudhendu R. Sharma, Vamsi Manthena, Yeyin Shi

Department of Agricultural and Biological Systems Engineering: Faculty Publications

High preweaning mortality (PWM) rates for piglets are a significant concern for the worldwide pork industries, causing economic loss and well-being issues. This study focused on identifying the factors affecting PWM, overlays, and predicting PWM using historical production data with statistical and machine learning models. Data were collected from 1,982 litters from the United States Meat Animal Research Center, Nebraska, over the years 2016 to 2021. Sows were housed in a farrowing building with three rooms, each with 20 farrowing crates, and taken care of by well-trained animal caretakers. A generalized linear model was used to analyze the various sow, …

Postsynthetic Modification Of The Nonanuclear Node In A Zirconium Metal−Organic Framework For Photocatalytic Oxidation Of Hydrocarbons, Rebecca Shu Hui Khoo, Christian Fiankor, Sizhuo Yang, Wenhui Hu, Chongqing Yang, Jingzhi Lu, Martha D. Morton, Xu Zhang, Yi Liu, Jier Huang, Jian Zhang

Department of Chemistry: Faculty Publications

Heterogeneous catalysis plays an indispensable role in chemical production and energy conversion. Incorporation of transition metals into metal oxides and zeolites is a common strategy to fine-tune the activity and selectivity of the resulting solid catalysts, as either the active center or promotor. Studying the underlying mechanism is however challenging. Decorating the metal-oxo clusters with transition metals in metal−organic frameworks (MOFs) via postsynthetic modification offers a rational approach to construct well-defined structural models for better understanding of the reaction mechanism. Therefore, it is important to expand the materials scope beyond the currently widely studied zirconium MOFs consisting of Zr_{6 …}

Breakdown Of The Drift-Diffusion Model For Transverse Spin Transport In A Disordered Pt Film, Kirill D. Belashchenko, Giovanni G. Baez Flores, Wuzhang Fang, Alexey Kovalev, Mark Van Schilfgaarde, Paul M. Haney, Mark D. Stiles

Department of Physics and Astronomy: Faculty Publications

Spin-accumulation and spin-current profiles are calculated for a disordered Pt film subjected to an in-plane electric current within the nonequilibrium Green's function approach. In the bulklike region of the sample, this approach captures the intrinsic spin Hall effect found in other calculations. Near the surfaces, the results reveal qualitative differences with the results of the widely used spin-diffusion model, even when the boundary conditions are modified to try to account for them. One difference is that the effective spin-diffusion length for transverse spin transport is significantly different from its longitudinal counterpart and is instead similar to the mean-free path. This …

Characterization Of Environmental Levels Of Pesticide Residues In Household Air And Dust Samples Near A Bioenergy Plant Using Treated Seed As Feedstock, Jabeen Taiba, Eleanor G. Rogan, Daniel D. Snow, Chandran Achutan, Muhammad Zahid

Nebraska Water Center: Faculty Publications

Exposure to neonicotinoid insecticides is associated with adverse human health outcomes. There is environmental contamination in Saunders County, Nebraska, due to the accumulation of fungicides and insecticides from a now-closed ethanol plant using seed corn as stock. A pilot study quantified environmental contamination in nearby houses from residual pesticides by measuring dust and air (indoor/outdoor) concentrations of neonicotinoids and fungicides at the study site (households within two miles of the plant) and control towns (20–30 miles away). Air (SASS^® 2300 Wetted-Wall Air Sampler) and surface dust (GHOST wipes with 4 × 4-inch template) samples were collected from eleven study …

Wics Conference 2023: Moving Beyond The Ordinary, Daren Redfearn, Daran Rudnick

Water and Integrated Cropping Systems Conferences

The theme of this year’s WICS Conference is Moving Beyond the Ordinary with the goal of addressing Team Science. Our vision is to provide opportunities and connection points among IANR faculty to leverage their individual knowledge, skills, abilities, and passions. A tendency for land grant institutions is often to deliver information biased from a single, primary discipline and perspective. This is known as comfort zone mega bias and has been defined as “the tendency to drag a problem into our comfort zone and solve the problem that we know how to solve, rather than solving the problem that needs to …

Majorana Bound States In A D-Wave Superconductor Planar Josephson Junction, Hamed Vakili, Moaz Ali, Mohamed Elekhtiar, Alexey Kovalev

Department of Physics and Astronomy: Faculty Publications

We study phase-controlled planar Josephson junctions comprising a two-dimensional electron gas with strong spin-orbit coupling and d-wave superconductors, which have an advantage of a high critical temperature. We show that a region between the two superconductors can be tuned into a topological state by the in-plane Zeeman field, and can host Majorana bound states. The phase diagram as a function of the Zeeman field, chemical potential, and the phase difference between superconductors exhibits the appearance of Majorana bound states for a wide range of parameters. We further investigate the behavior of the topological gap and its dependence on the …

Nuclear Dimension Of Graph C∗-Algebras With Condition (K), Gregory Faurot, Christopher Schafhauser

Department of Mathematics: Faculty Publications

We prove that for any countable directed graph E with Condition (K), the associated graph C^*-algebra C^*(E) has nuclear dimension at most 2. Furthermore, we provide a sufficient condition producing an upper bound of 1.

Does Drought Stress Eliminate The Benefit Of Elevated Co2,/Sub> On Soybean Yield? Using An Improved Model To Link Crop And Soil Water Relations, Wenguang Sun, David Fleisher, Dennis Timlin, Chittaranjan Ray, Zhuangji Wang, Sahila Beegum, Vangimalla Reddy

Daugherty Water for Food Global Institute: Faculty Publications

Crop simulation models are indispensable tools that facilitate studies to assess climate impacts and adaptation responses, but have not been adequately tested in terms of accurately predicting crop growth and water stress responses to high carbon dioxide concentrations [CO₂]. The soybean model, GLYCIM, previously modified with a coupled leaf-level gas exchange – energy balance model, was integrated with a two-dimensional convectivediffusive root growth module which linked soil and leaf water potentials with the regulation of stomatal conductance. We evaluated the accuracy of this modified GLYCIM using experimental data from a Free-Air CO₂ Enrichment (FACE) site, SoyFACE, and …

Leaching Performance Of Nanotechnology-Induced High-Arsenic-Bearing Tooeleite-Like Mineral Nanowaste, Arindam Malakar, Sanjit Das, Samirul Islam, Rajneesh Singh, Sugata Ray

Nebraska Water Center: Faculty Publications

For arsenic decontamination from groundwater, arsenic crystallization is becoming adopted due to its sustainability and economic benefits. However, arsenic crystallization technology is a two-step process, which makes it complex and generates hazardous waste. Successful efforts toward making it a single-step process are presented here. The addition of nanorods and ball-milled zinc sulfide nanoparticles to arsenic-contaminated water result in highly monodispersed and higharsenic- containing mineralized nanowaste with a crystalline structure similar to the mineral Tooeleite ((Fe³⁺₆(As³⁺O₃)₄SO₄(OH)₄•4H₂O)). This study reports the results of a short-term stability test …

Data Sharing And Ontology Use Among Agricultural Genetics, Genomics, And Breeding Databases And Resources Of The Agbiodata Consortium, Jennifer L. Clarke, Laurel D. Cooper, Monica F. Poelchau, Tanya Z. Berardini, Justin Elser, Andrew D. Farmer, Stephen Ficklin, Sunita Kumari, Marie-Angélique Laporte, Rex T. Nelson, Rie Sadohara, Peter Selby, Anne E. Thessen, Brandon Whitehead, Taner Z. Sen

Department of Statistics: Faculty Publications

Over the last couple of decades, there has been a rapid growth in the number and scope of agricultural genetics, genomics and breeding databases and resources. The AgBioData Consortium (https://www.agbiodata.org/) currently represents 44 databases and resources (https://www.agbiodata.org/databases) covering model or crop plant and animal GGB data, ontologies, pathways, genetic variation and breeding platforms (referred to as ‘databases’ throughout). One of the goals of the Consortium is to facilitate FAIR (Findable, Accessible, Interoperable, and Reusable) data management and the integration of datasets which requires data sharing, along with structured vocabularies and/or ontologies. Two AgBioData working groups, focused on Data Sharing and …

Understanding The Soil Water Dynamics During Excess And Deficit Rainfall Conditions Over The Core Monsoon Zone Of India, Mangesh M. Goswami, Milind Mujumdar1, Bhupendra Bahadur Singh, Madhusudan Ingale, Naresh Ganeshi, Manish Ranalkar, Trenton E. Franz, Prashant Srivastav, Dev Niyogi, R Krishnan, S N. Patil

School of Natural Resources: Faculty Publications

Observations of soil moisture (SM) during excess and deficit monsoon seasons between 2000 to 2021 present a unique opportunity to understand the soil water dynamics (SWD) over core monsoon zone (CMZ) of India. This study aims to analyse SWD by investigating the SM variability, SM memory (SMM), and the coupling between surface and subsurface SM levels. Particularly intriguing are instances of concurrent monsoonal extremes, which give rise to complex SWD patterns. Usually, it is noted that a depleted convective activity and persistence of higher temperatures during the pre-monsoon season leads to lower SM, while monsoon rains and post-monsoon showers support …

Machine Learning‑Assisted Low‑Dimensional Electrocatalysts Design For Hydrogen Evolution Reaction, Jin Li, Naiteng Wu, Jian Zhang, Hong‑Hui Wu, Kunming Pan, Yingxue Wang, Guilong Liu, Xianming Liu, Zhenpeng Yao, Qiaobao Zhang

Department of Chemistry: Faculty Publications

Efficient electrocatalysts are crucial for hydrogen generation from electrolyzing water. Nevertheless, the conventional "trial and error" method for producing advanced electrocatalysts is not only cost-ineffective but also time-consuming and labor-intensive. Fortunately, the advancement of machine learning brings new opportunities for electrocatalysts discovery and design. By analyzing experimental and theoretical data, machine learning can effectively predict their hydrogen evolution reaction (HER) performance. This review summarizes recent developments in machine learning for low-dimensional electrocatalysts, including zero-dimension nanoparticles and nanoclusters, one-dimensional nanotubes and nanowires, two-dimensional nanosheets, as well as other electrocatalysts. In particular, the effects of descriptors and algorithms on screening low-dimensional electrocatalysts …

Observation Of Τ Lepton Pair Production In Ultraperipheral Pb-Pb Collisions At √SNn=5.02 Tev, A. Tumasyan

Department of Physics and Astronomy: Faculty Publications

We present an observation of photon-photon production of τ lepton pairs in ultraperipheral lead-lead collisions. The measurement is based on a data sample with an integrated luminosity of 404 μb⁻¹ collected by the CMS experiment at a center-of-mass energy per nucleon pair of √s_NN = 5.02 TeV. The γγ → τ⁺τ⁻ process is observed for τ⁺τ⁻ events with a muon and three charged hadrons in the final state. The measured fiducial cross section is σ(γγ → τ⁺τ^-) = 4.8 ± 0.6(stat) ± 0.5(syst) μb, where the second …

Scaling Isolated-Attosecond-Pulse Duration By Controlling A Trajectory Parameter, Dian Peng, Jean Marcel Ngoko Djiokap

Department of Physics and Astronomy: Faculty Publications

Reaching an ever shorter duration of isolated attosecond pulses (IAPs) is an ongoing mission in attosecond science. Wide usage of long-wavelength driving lasers has greatly broadened bandwidths for generating IAPs. We propose a strategy to further exploit the ability of a long-wavelength laser in producing short IAPs. We introduce a scaling relationship between IAP duration and a trajectory parameter that is associated with the classical cutoff trajectory of high-order harmonic generation (HHG) in gases. This trajectory parameter can facilitate in shortening IAP duration by shaping laser waveform. We demonstrate the effectiveness of our methods with calculations of HHG from Ne …