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Exploring The Interactions Between Sars-Cov-2 And Host Proteins, Sojan Shrestha Jul 2023

Exploring The Interactions Between Sars-Cov-2 And Host Proteins, Sojan Shrestha

School of Biological Sciences: Dissertations, Theses, and Student Research

The severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is the causative agent of the current pandemic, Coronavirus Disease 2019 (COVID-19). SARS-CoV-2 is considered to be of zoonotic origin; it originated in non-human animals and was transmitted to humans. Since the early stage of the pandemic, however, the evidence of transmissions from humans to animals (reverse zoonoses) has been found in multiple animal species including mink, white-tailed deer, and pet and zoo animals. Furthermore, secondary zoonotic events of SARS-CoV-2, transmissions from animals to humans, have been also reported. It is suggested that non-human hosts can act as SARS-CoV-2 reservoirs where accumulated …


Article Processing Charges For Open Access Journal Publishing: A Review, Ángel Borrego Jul 2023

Article Processing Charges For Open Access Journal Publishing: A Review, Ángel Borrego

Copyright, Fair Use, Scholarly Communication, etc.

Abstract

Some open access (OA) publishers charge authors fees to make their articles freely available online. This paper reviews literature on article processing charges (APCs) that has been published since 2000. Despite praise for diamond OA journals, which charge no fees, most OA articles are published by commercial publishers that charge APCs. Publishers fix APCs depending on the reputation assigned to journals by peers. Evidence shows a relationship between high impact metrics and higher, faster rising APCs. Authors express reluctance about APCs, although this varies by discipline depending on previous experience of paying publication fees and the availability of research …


Impact Of Distillers' Removal And Impact Of Lowering Inclusions Of Distillers’ Grains Plus Solubles And Different Roughage Quality On Finishing Cattle Performance, Sofia Suarez Lorences Jul 2023

Impact Of Distillers' Removal And Impact Of Lowering Inclusions Of Distillers’ Grains Plus Solubles And Different Roughage Quality On Finishing Cattle Performance, Sofia Suarez Lorences

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

A feedlot trial (Exp. 1) was conducted to evaluate the impact of removing modified distillers grains plus solubles (MDGS) on performance and carcass characteristics. Cattle with MDGS removed on either d 79 or d 43 had reduced final BW, DMI, and ADG. Cattle with MDGS removed on d 43 were 5% less efficient than cattle fed 20% MDGS throughout the entire 124-d feeding period. Cattle fed 20% MDGS throughout the whole feeding had the greatest HCW and LM area. There were no differences in backfat and marbling scores among treatments, and no differences in percent of abscessed livers. In conclusion, …


Design And Development Of Ultrabroadband, High-Gain, And High-Isolation Thz Mimo Antenna With A Complementary Split-Ring Resonator Metamaterial, Ammar Armghan, Khaled Aliqab, Meshari Alsharari, Osamah Alsalman, Juveriya Parmar, Shobhit K. Patel Jun 2023

Design And Development Of Ultrabroadband, High-Gain, And High-Isolation Thz Mimo Antenna With A Complementary Split-Ring Resonator Metamaterial, Ammar Armghan, Khaled Aliqab, Meshari Alsharari, Osamah Alsalman, Juveriya Parmar, Shobhit K. Patel

Department of Mechanical and Materials Engineering: Faculty Publications

The need for high-speed communication has created a way to design THz antennas that operate at high frequencies, speeds, and data rates. In this manuscript, a THz MIMO antenna is designed using a metamaterial. The two-port antenna design proposed uses a complementary splitring resonator patch. The design results are also compared with a simple patch antenna to show the improvement. The design shows a better isolation of 50 dB. A broadband width of 8.3 THz is achieved using this complementary split-ring resonator design. The percentage bandwidth is 90%, showing an ultrabroadband response. The highest gain of 10.34 dB is achieved …


Economic Value Of User Interface Design, Anna Kruse Jun 2023

Economic Value Of User Interface Design, Anna Kruse

Honors Program: Senior Projects (Public)

The economic value of well-designed user interfaces (UI) and user experiences (UX) is challenging to quantify, a topic that the current literature does not sufficiently explore. Those responsible for deciding whether to invest resources in UI/UX typically base these decisions on monetary considerations. The link between effective UI/UX design and profit may not be immediately clear to most, yet it is universally acknowledged that satisfied customers lead to successful business. To underscore the importance of investing in UI/UX, it is crucial to define the relationship between effective design and economic success in a way that can be understood by designers, …


Mass Spectrometry Of The White Adipose Metabolome In A Hibernating Mammal Reveals Seasonal Changes In Alternate Fuels And Carnitine Derivatives, Frazer I. Heinis, Sophie Alvarez, Matthew T. Andrews Jun 2023

Mass Spectrometry Of The White Adipose Metabolome In A Hibernating Mammal Reveals Seasonal Changes In Alternate Fuels And Carnitine Derivatives, Frazer I. Heinis, Sophie Alvarez, Matthew T. Andrews

Nebraska Center for Biotechnology: Faculty and Staff Publications

Mammalian hibernators undergo substantial changes in metabolic function throughout the seasonal hibernation cycle. We report here the polar metabolomic profile of white adipose tissue isolated from active and hibernating thirteen-lined ground squirrels (Ictidomys tridecemlineatus). Polar compounds in white adipose tissue were extracted from five groups representing different timepoints throughout the seasonal activity-torpor cycle and analyzed using hydrophilic interaction liquid chromatography-mass spectrometry in both the positive and negative ion modes. A total of 224 compounds out of 660 features detected after curation were annotated. Unsupervised clustering using principal component analysis revealed discrete clusters representing the different seasonal timepoints throughout hibernation. One-way …


Arthropod Diversity In Phytotelmata Of Calathea Capitata (Zingiberales; Marantaceae) Host Plants From Peru, Divya Dendi, Timo Förster, Caroline S. Chaboo Jun 2023

Arthropod Diversity In Phytotelmata Of Calathea Capitata (Zingiberales; Marantaceae) Host Plants From Peru, Divya Dendi, Timo Förster, Caroline S. Chaboo

Department of Entomology: Faculty Publications

Cryptic habitats are often overlooked in biodiversity surveys. Phytotelmata, or plant pools, are one type of cryptic habitat that supports diverse fauna in a miniature ecosystem. This study surveys the arthropod community of two types of phytotelmata, bracts and leaf rolls, on a single species, Calathea capitata (Ruiz and Pav.) Lindl. (Zingiberales: Marantaceae), from one Amazon site in Peru. Specimens were collected from eight bracts and eight leaf rolls. A total of 55 arthropods (36 adults, 19 juveniles) were found in both phytotelmata types. In the bract samples were found: spiders (Araneae: Corinnidae), beetles (Coleoptera: Carabidae, Erotylidae, Staphylindae), flies (Diptera: …


First Things First: Widespread Nutrient Deficiencies Limit Yields In Smallholder Oil Palm Fields, Hendra Sugianto, Juan Pablo Monzon, Iput Pradiko, Fatima A. Tenorio, Ya Li Lim, Christopher R. Donough, Sunawan, Suroso Rahutomo, Fahmuddin Agus, James Cock, Joni Amsar, Rana Farrasati, Ridho Iskandar, Juan I. Rattalino Edreira, Shofia Saleh, Heri Santoso, Antonius P. Tito, Nadib Ulfaria, Maja A. Slingerland, Patricio Grassini Jun 2023

First Things First: Widespread Nutrient Deficiencies Limit Yields In Smallholder Oil Palm Fields, Hendra Sugianto, Juan Pablo Monzon, Iput Pradiko, Fatima A. Tenorio, Ya Li Lim, Christopher R. Donough, Sunawan, Suroso Rahutomo, Fahmuddin Agus, James Cock, Joni Amsar, Rana Farrasati, Ridho Iskandar, Juan I. Rattalino Edreira, Shofia Saleh, Heri Santoso, Antonius P. Tito, Nadib Ulfaria, Maja A. Slingerland, Patricio Grassini

Department of Agronomy and Horticulture: Faculty Publications

CONTEXT: Indonesia is the most important oil palm producing country. Nearly 40% of planted area is managed by smallholders, with yields well below the potential. Efforts to increase productivity have focused on the source of planting material, with little attention paid to plant nutrition.

OBJECTIVE: To assess the degree to which current productivity in smallholder oil palm fields is limited by nutrients in scenarios with distinct sources of planting material.

METHODS: We collected detailed data on leaf nutrient concentration from 30 fields to derive minimum sampling size needed to diagnose nutrient status. Subsequently, we collected data on …


Incorporation Of Carbon Dioxide Production And Transport Module Into A Soil-Plant-Atmosphere Continuum Model, Sahila Beegum, Wenguang Sun, Dennis Timlin, Zhuangji Wang, David Fleisher, Vangimalla R. Reddy, Chittaranjan Ray Jun 2023

Incorporation Of Carbon Dioxide Production And Transport Module Into A Soil-Plant-Atmosphere Continuum Model, Sahila Beegum, Wenguang Sun, Dennis Timlin, Zhuangji Wang, David Fleisher, Vangimalla R. Reddy, Chittaranjan Ray

Nebraska Water Center: Faculty Publications

Carbon dioxide release from agricultural soils is influenced by multiple factors, including soil (soil properties, soil-microbial respiration, water content, temperature, soil diffusivity), plant (carbon assimilation, rhizosphere respiration), atmosphere (climate, atmospheric carbon dioxide), etc. Accurate estimation of the carbon dioxide (CO2) fluxes in the soil and soil respiration (CO2 flux between soil and atmosphere) requires a process-based modeling approach that accounts for the influence of all these factors. In this study, a module for CO2 production via root and microbial respiration and diffusion-based carbon dioxide transport is developed and integrated with MAIZSIM (a process-based maize crop growth …


Putrescine Detected In Strains Of Staphylococcus Aureus, Javier Seravalli, Frank Portugal Jun 2023

Putrescine Detected In Strains Of Staphylococcus Aureus, Javier Seravalli, Frank Portugal

Department of Biochemistry: Faculty Publications

Most forms of life, including the archaea, bacteria, and eukaryotes synthesize the polyamine putrescine. Although putrescine is widely distributed, several Gram-positive bacteria, including Staphylococcus aureus (S. aureus), appear to be the exceptions. We report here that strains of S. aureus can produce the polyamine putrescine, as well as the derivative N-acetyl-putrescine. Three strains of S. aureus from the American Type Culture Collection (ATCC), one strain listed in the National Center for Biotechnology Information (NCBI) database, whose genomic sequence is well defined, and well as eight strains from S. aureus-induced brain abscesses of individual patients from multiple …


Biological Case Against Downlisting The Whooping Crane And For Improving Implementation Under The Endangered Species Act, Andrew J. Caven, Hillary L. Thompson, David M. Baasch, Barry K. Hartup, Amanda M. Hegg, Stephanie M. Schmidt, Irvin Louque, Craig R. Allen, Carter G. Crouch, Craig A. Davis, Joel G. Jorgensen, Jane E. Austin, Bethany L. Ostrom, Richard D. Beilfuss, George W. Archibald, Anne E. Lacy Jun 2023

Biological Case Against Downlisting The Whooping Crane And For Improving Implementation Under The Endangered Species Act, Andrew J. Caven, Hillary L. Thompson, David M. Baasch, Barry K. Hartup, Amanda M. Hegg, Stephanie M. Schmidt, Irvin Louque, Craig R. Allen, Carter G. Crouch, Craig A. Davis, Joel G. Jorgensen, Jane E. Austin, Bethany L. Ostrom, Richard D. Beilfuss, George W. Archibald, Anne E. Lacy

School of Natural Resources: Faculty Publications

The Whooping Crane (Grus americana; WHCR) is a large, long-lived bird endemic to North America. The remnant population migrates between Aransas National Wildlife Refuge, USA, and Wood Buffalo National Park, Canada (AWBP), and has recovered from a nadir of 15-16 birds in 1941 to ~540 birds in 2022. Two ongoing reintroduction efforts in Louisiana and the Eastern Flyway together total ~150 birds. Evidence indicates the U.S. Fish and Wildlife Service (USFWS) is strongly considering downlisting the species from an endangered to a threatened status under the Endangered Species Act (ESA). We examined the current status of the WHCR through the …


Measurements Of Jet Multiplicity And Jet Transverse Momentum In Multijet Events In Proton–Proton Collisions At √S = 13tev, A. Tumasyan Jun 2023

Measurements Of Jet Multiplicity And Jet Transverse Momentum In Multijet Events In Proton–Proton Collisions At √S = 13tev, A. Tumasyan

Department of Physics and Astronomy: Faculty Publications

Multijet events at large transverse momentum (pT) are measured at √ s = 13 TeV using data recorded with the CMS detector at the LHC, corresponding to an integrated luminosity of 36.3 fb−1. The multiplicity of jets with pT > 50 GeV that are produced in association with a high-pT dijet system is measured in various ranges of the pT of the jet with the highest transverse momentum and as a function of the azimuthal angle difference Δφ1,2 between the two highest pT jets in the dijet system. The differential production …


Cauchy-Type Integral Method For Solving The Linearized One-Dimensional Vlasov-Poisson Equation, Frank M. Lee, Bradley A. Shadwick Jun 2023

Cauchy-Type Integral Method For Solving The Linearized One-Dimensional Vlasov-Poisson Equation, Frank M. Lee, Bradley A. Shadwick

Department of Physics and Astronomy: Faculty Publications

We present a method for solving the linearized Vlasov-Poisson equation, based on analyticity properties of the equilibrium and initial condition through Cauchy-type integrals, that produces algebraic expressions for the distribution and field, i.e., the solution is expressed without integrals. Standard extant approaches involve deformations of the Bromwich contour that give erroneous results for certain physically reasonable configurations or eigenfunction expansions that are misleading as to the temporal structure of the solution. Our method is more transparent, lacks these defects, and predicts previously unrecognized behavior.


Search For Nonresonant Higgs Boson Pair Production In The Four Leptons Plus Twob Jets Final State In Proton-Proton Collisions At √S = 13 Tev, A. Tumasyan Jun 2023

Search For Nonresonant Higgs Boson Pair Production In The Four Leptons Plus Twob Jets Final State In Proton-Proton Collisions At √S = 13 Tev, A. Tumasyan

Department of Physics and Astronomy: Faculty Publications

The first search for nonresonant production of Higgs boson pairs (HH) with one H decaying into four leptons and the other into a pair of b quarks is presented, using proton-proton collisions recorded at a center-of-mass energy of √s = 13 TeV by the CMS experiment. The analyzed data correspond to an integrated luminosity of 138 fb−1. A 95% confidence level upper limit of 32.4 is set on the signal strength modifier μ, defined as the ratio of the observed HH production rate in the HH ⟶ ZZ*b[] ⟶ 4ℓb[] decay channel to the standard model (SM) …


Search For Nonresonant Higgs Boson Pair Production In The Four Leptons Plus Twob Jets Final State In Proton-Proton Collisions At √S = 13 Tev, Armen R. Tumasyan, Cma Collaboration Jun 2023

Search For Nonresonant Higgs Boson Pair Production In The Four Leptons Plus Twob Jets Final State In Proton-Proton Collisions At √S = 13 Tev, Armen R. Tumasyan, Cma Collaboration

Department of Physics and Astronomy: Faculty Publications

The first search for nonresonant production of Higgs boson pairs (HH) with one H decaying into four leptons and the other into a pair of b quarks is presented, using proton-proton collisions recorded at a center-of-mass energy of √s = 13 TeV by the CMS experiment. The analyzed data correspond to an integrated luminosity of 138 fb−1. A 95% confidence level upper limit of 32.4 is set on the signal strength modifier μ, defined as the ratio of the observed HH production rate in the HH ⟶ ZZ*bb[bar] ⟶ 4ℓb[bar] decay channel to the standard model (SM) …


The Complete Mitochondrial Genome Of Eulaelaps Huzhuensis (Mesostigmata: Haemogamasidae), Hui-Juan Yang, Zhi-Hua Yang, Tian-Guang Ren, Wen-Ge Dong Jun 2023

The Complete Mitochondrial Genome Of Eulaelaps Huzhuensis (Mesostigmata: Haemogamasidae), Hui-Juan Yang, Zhi-Hua Yang, Tian-Guang Ren, Wen-Ge Dong

Harold W. Manter Laboratory of Parasitology: Library Materials

Some mites of the family Haemogamasidae can transmit a variety of zoonotic diseases and have important public health and safety implications. Currently, however, little attention has been paid to molecular data of Haemogamasidae species, limiting our understanding of their evolutionary and phylogenetic relationships. In this study, the complete mitochondrial genome of Eulaelaps huzhuensis was determined for the first time, and its genomic information was analyzed in detail. The mitochondrial genome of E. huzhuensis is 14,872 bp in length with 37 genes and two control regions. The base composition showed a distinct AT preference. Twelve protein-coding genes have a typical ATN …


Cover Crops And Soil Health In Rainfed And Irrigated Corn: What Did We Learn After 8 Years?, Humberto Blanco-Canqui, Sabrina J. Ruis, Katja Koehler-Cole, Roger Elmore, Charles A. Francis Jun 2023

Cover Crops And Soil Health In Rainfed And Irrigated Corn: What Did We Learn After 8 Years?, Humberto Blanco-Canqui, Sabrina J. Ruis, Katja Koehler-Cole, Roger Elmore, Charles A. Francis

Department of Agronomy and Horticulture: Faculty Publications

Duration of cover crop (CC) management, CC biomass production, and other factors could impact how CC affects soil health. We studied the 8-year cumulative impacts of winter rye (Secale cereale L.) CC on soil physical, chemical, and biological properties in rainfed and irrigated no-till corn (Zea mays L.)-based systems in the western US Corn Belt. Average annual CC biomass production was 0.56 ± 0.51 Mg ha−1 at the rainfed site and 0.98 ± 0.95 Mg ha−1 at the irrigated site. After 8 years, CC improved particulate organic matter (POM) and mean weight diameter of waterstable aggregates …


A Flexible Ot Testbed For Evaluating On-Device Implementations Of Iec-61850 Goose, Matthew Boeding, Michael Hempel, Hamid Sharif, Juan Lopez Jr., Kalyan Perumalla Jun 2023

A Flexible Ot Testbed For Evaluating On-Device Implementations Of Iec-61850 Goose, Matthew Boeding, Michael Hempel, Hamid Sharif, Juan Lopez Jr., Kalyan Perumalla

Department of Electrical and Computer Engineering: Faculty Publications

The growing convergence of Information Technology and Operational Technology has enhanced communication and visibility across power grids. This, coupled with the growing use of Distributed Energy Resources in power grids, has enhanced the grid capabilities while also creating a larger attack surface for malicious actors. A common protocol vulnerable to these attacks is the IEC-61850 GOOSE protocol due to its low-latency requirements, multicast packet delivery method, and lack of encryption. In this paper, we evaluate the security implications of different hardware implementations of this protocol by contrasting device response and recovery of two commercial off-the-shelf Intelligent Electronic Devices from separate …


Oral Microbial Communities In Children, Caregivers, And Associations With Salivary Biomeasures And Environmental Tobacco Smoke Exposure, Jason A. Rothman, Jenna L. Riis, Katrina R. Hamilton, Clancy Blair, Douglas A. Granger, Katrine Katrine Whiteson Jun 2023

Oral Microbial Communities In Children, Caregivers, And Associations With Salivary Biomeasures And Environmental Tobacco Smoke Exposure, Jason A. Rothman, Jenna L. Riis, Katrina R. Hamilton, Clancy Blair, Douglas A. Granger, Katrine Katrine Whiteson

Department of Psychology: Faculty Publications

Human oral microbial communities are diverse, with implications for oral and systemic health. Oral microbial communities change over time; thus, it is important to understand how healthy versus dysbiotic oral microbiomes differ, especially within and between families. There is also a need to understand how the oral microbiome composition is changed within an individual including by factors such as environmental tobacco smoke (ETS) exposure, metabolic regulation, inflammation, and antioxidant potential. Using archived saliva samples collected from caregivers and children during a 90-month follow-up assessment in a longitudinal study of child development in the context of rural poverty, we used 16S …


Impact Of Land Use/Cover Change And Slope Gradient On Soil Organic Carbon Stock In Anjeni Watershed, Northwest Ethiopia, Bethel Geremew, Tsegaye Tadesse, Bobe Bedadi, Hero T. Gollany, Kindie Tesfaye, Abebe Aschalew Jun 2023

Impact Of Land Use/Cover Change And Slope Gradient On Soil Organic Carbon Stock In Anjeni Watershed, Northwest Ethiopia, Bethel Geremew, Tsegaye Tadesse, Bobe Bedadi, Hero T. Gollany, Kindie Tesfaye, Abebe Aschalew

National Drought Mitigation Center: Faculty Publications

Today’s agri-food systems face the triple challenge of addressing food security, adapting to climate change, and reducing the climate footprint by reducing the emission of greenhouse gases (GHG). In agri-food systems, changes in land use and land cover (LULC) could affect soil physicochemical properties, particularly soil organic carbon (SOC) stock. However, the impact varies depending on the physical, social, and economic conditions of a given region or watershed. Given this, a study was conducted to quantify the impact of LULC and slope gradient on SOC stock and C sequestration rate in the Anjeni watershed, which is a highly populated and …


Combining Cosmic-Ray Neutron Sensor And Fallout 137Cs To Explore The Connection Of Soil Water Content With Soil Redistribution In An Agroforestry Hillslope, Leticia Gaspar, Trenton E. Franz, Arturo Catalá, Iván Lizaga, María Concepción Ramos, Ana Navas Jun 2023

Combining Cosmic-Ray Neutron Sensor And Fallout 137Cs To Explore The Connection Of Soil Water Content With Soil Redistribution In An Agroforestry Hillslope, Leticia Gaspar, Trenton E. Franz, Arturo Catalá, Iván Lizaga, María Concepción Ramos, Ana Navas

School of Natural Resources: Faculty Publications

To ensure sustainable agricultural management, there is a need not only to quantify soil erosion rates but also to obtain information on the status of soil water content and soil loss under different soil types and land uses. A clear understanding of the temporal dynamics and the soil moisture spatial variability (SMSV) will help to control soil degradation by hydrological processes. This study represents the first attempt connecting cosmic-ray neutron sensors (CRNS) with soil erosion research, a novel approach to explore the complex relationships between soil water content (SWC) and soil redistribution processes using two of the most powerful nuclear …


Restoration Of Normal Blood Flow In Atherosclerotic Arteries Promotes Plaque Stabilization, Morgan A. Schake, Ian Mccue, Evan T. Curtis, Thomas J. Ripperda Jr., Samuel Harvey, Bryan T. Hackfort, Anna Fitzwater, Yiannis S. Chatzizisis, Forrest Kievit, Ryan M. Pedrigi Jun 2023

Restoration Of Normal Blood Flow In Atherosclerotic Arteries Promotes Plaque Stabilization, Morgan A. Schake, Ian Mccue, Evan T. Curtis, Thomas J. Ripperda Jr., Samuel Harvey, Bryan T. Hackfort, Anna Fitzwater, Yiannis S. Chatzizisis, Forrest Kievit, Ryan M. Pedrigi

Department of Mechanical and Materials Engineering: Faculty Publications

Blood flow is a key regulator of atherosclerosis. Disturbed blood flow promotes atherosclerotic plaque development, whereas normal blood flow protects against plaque development. We hypothesized that normal blood flow is also therapeutic, if it were able to be restored within atherosclerotic arteries. Apolipoprotein E-deficient (ApoE-/-) mice were initially instrumented with a blood flow-modifying cuff to induce plaque development and then five weeks later the cuffwas removed to allowrestoration of normal blood flow. Plaques in decuffed mice exhibited compositional changes that indicated increased stability compared to plaques in mice with the cuff maintained. The therapeutic benefit of decuffingwas comparable …


Protocol To Develop A Synthetic Biology Toolkit For The Non-Model Bacterium R. Palustris, Mark Kathol, Cheryl Immethun, Rajib Saha Jun 2023

Protocol To Develop A Synthetic Biology Toolkit For The Non-Model Bacterium R. Palustris, Mark Kathol, Cheryl Immethun, Rajib Saha

Department of Chemical and Biomolecular Engineering: Faculty Publications

Numerous biology tools are developed to work for model organisms, which, however, do not work effectively in non-model organisms. Here, we present a protocol for developing a synthetic biology toolkit for Rhodopseudomonas palustris CGA009, a non-model bacterium with unique metabolic properties. We describe steps for introducing and characterizing biological devices in nonmodel bacteria, such as the utilization of fluorescence markers and RT-qPCR. This protocol may also be applicable for other non-model organisms. For complete details on the use and execution of this protocol, please refer to Immethun et al..1


A Complete Telomere-To-Telomere Assembly Of The Maize Genome, Jian Chen, Zijian Wang, Kaiwen Tan, Wei Huang, Junpeng Shi, Tong Li, Jiang Hu, Kai Wang, Chao Wang, Beibei Xin, Haiming Zhao, Weibin Song, Matthew B. Hufford, James C. Schnable, Weiwei Jin, China Agricultural University, Hainan Yazhou Bay Seed Laboratory Jun 2023

A Complete Telomere-To-Telomere Assembly Of The Maize Genome, Jian Chen, Zijian Wang, Kaiwen Tan, Wei Huang, Junpeng Shi, Tong Li, Jiang Hu, Kai Wang, Chao Wang, Beibei Xin, Haiming Zhao, Weibin Song, Matthew B. Hufford, James C. Schnable, Weiwei Jin, China Agricultural University, Hainan Yazhou Bay Seed Laboratory

Department of Agronomy and Horticulture: Faculty Publications

A complete telomere-to-telomere (T2T) finished genome has been the long pursuit of genomic research. Through generating deep coverage ultralong Oxford Nanopore Technology (ONT) and PacBio HiFi reads, we report here a complete genome assembly of maize with each chromosome entirely traversed in a single contig. The 2,178.6 Mb T2T Mo17 genome with a base accuracy of over 99.99% unveiled the structural features of all repetitive regions of the genome. There were several super-long simple-sequence-repeat arrays having consecutive thymine–adenine– guanine (TAG) tri-nucleotide repeats up to 235 kb. The assembly of the entire nucleolar organizer region of the 26.8 Mb array with …


Long-Term Degradation Mechanisms In Application-Implemented Radical Thin Films, Ewa Malgorzata Nowik-Boltyk, Tobias Junghoefer, Mathias Glaser, Erika Giangrisostomi, Ruslan Ovsyannikov, Shuyang Zhang, Chan Shu, Andrzej Rajca, Arrigo Calzolari, M. Benedetta Casu Jun 2023

Long-Term Degradation Mechanisms In Application-Implemented Radical Thin Films, Ewa Malgorzata Nowik-Boltyk, Tobias Junghoefer, Mathias Glaser, Erika Giangrisostomi, Ruslan Ovsyannikov, Shuyang Zhang, Chan Shu, Andrzej Rajca, Arrigo Calzolari, M. Benedetta Casu

Department of Chemistry: Faculty Publications

Blatter radical derivatives are very attractive due to their potential applications, ranging from batteries to quantum technologies. In this work, we focus on the latest insights regarding the fundamental mechanisms of radical thin film (long-term) degradation, by comparing two Blatter radical derivatives. We find that the interaction with different contaminants (such as atomic H, Ar, N, and O and molecular H2, N2, O2, H2O, and NH2) affects the chemical and magnetic properties of the thin films upon air exposure. Also, the radical-specific site, where the contaminant interaction takes place, plays …


Enhancing Adaptation Of Tropical Maize To Temperate Environments Using Genomic Selection, Nicole E. Choquette, Teclemariam Weldekidan, Jason Brewer, Scott B. Davis, Randall J. Wisser, James B. Holland Jun 2023

Enhancing Adaptation Of Tropical Maize To Temperate Environments Using Genomic Selection, Nicole E. Choquette, Teclemariam Weldekidan, Jason Brewer, Scott B. Davis, Randall J. Wisser, James B. Holland

United States Department of Agriculture-Agricultural Research Service / University of Nebraska-Lincoln: Faculty Publications

Tropical maize can be used to diversify the genetic base of temperate germplasm and help create climate-adapted cultivars. However, tropical maize is unadapted to temperate environments, in which sensitivities to long photoperiods and cooler temperatures result in severely delayed flowering times, developmental defects, and little to no yield. Overcoming this maladaptive syndrome can require a decade of phenotypic selection in a targeted, temperate environment. To accelerate the incorporation of tropical diversity in temperate breeding pools, we tested if an additional generation of genomic selection can be used in an off-season nursery where phenotypic selection is not very effective. Prediction models …


Floodwater Drainage Assessment Of Offutt Air Force Base, Nebraska, 2020–22, Christopher M. Hobza Jun 2023

Floodwater Drainage Assessment Of Offutt Air Force Base, Nebraska, 2020–22, Christopher M. Hobza

United States Geological Survey: Water Reports and Publications

Offutt Air Force Base, south of Omaha, Nebraska, experienced major flooding during the March 2019 flood event because of the proximity of the base to the confluence of the Missouri River and nearby tributaries, which exceeded flood stages. Postflood, standing water remained through much of the year, attracting waterfowl and other birds and posing a major safety risk to aircraft. The United States Geological Survey, in cooperation with the United States Air Force, began a study in 2020 to describe the hydrologic processes that affect the persistence of standing water on Offutt Air Force Base.

Existing site data, reviewed in …


Search For Top Squarks In The Four-Body Decay Mode With Single Lepton Final States In Proton-Proton Collisions At √S = 13 Tev, A. Tumasyan Jun 2023

Search For Top Squarks In The Four-Body Decay Mode With Single Lepton Final States In Proton-Proton Collisions At √S = 13 Tev, A. Tumasyan

Department of Physics and Astronomy: Faculty Publications

A search for the pair production of the lightest supersymmetric partner of the top quark, the top squark ([]1), is presented. The search targets the four-body decay of the []1, which is preferred when the mass difference between the top squark and the lightest supersymmetric particle is smaller than the mass of the W boson. This decay mode consists of a bottom quark, two other fermions, and the lightest neutralino ( []01 ), which is assumed to be the lightest supersymmetric particle. The data correspond to an integrated luminosity of 138 fb−1 of …


Diet-Microbiome-Immune Interplay In Multiple Sclerosis: Understanding The Impact Of Phytoestrogen Metabolizing Gut Bacteria, Peter C. Lehman, Sudeep Ghimire, Jeffrey D. Price, Amanda E. Ramer-Tait, Ashutosh K. Mangalam Jun 2023

Diet-Microbiome-Immune Interplay In Multiple Sclerosis: Understanding The Impact Of Phytoestrogen Metabolizing Gut Bacteria, Peter C. Lehman, Sudeep Ghimire, Jeffrey D. Price, Amanda E. Ramer-Tait, Ashutosh K. Mangalam

Department of Nutrition and Health Sciences: Faculty Publications

Multiple sclerosis (MS) is a chronic and progressive autoimmune disease of the central nervous system (CNS), with both genetic and environmental factors contributing to the pathobiology of the disease. Although HLA genes have emerged as the strongest genetic factor linked to MS, consensus on the environmental risk factors is lacking. Recently, the gut microbiota has garnered increasing attention as a potential environmental factor in MS, as mounting evidence suggests that individuals with MS exhibit microbial dysbiosis (changes in the gut microbiome). Thus, there has been a strong emphasis on understanding the role of the gut microbiome in the pathobiology of …


Optical Characterization Of Isothermal Spin State Switching In An Fe(Ii) Spin Crossover Molecular And Polymer Ferroelectric Bilayer, Saeed Yazdani, Kourtney Collier, Grace Yang, Jared Phillips, Ashley Dale, Aaron Mosey, Samuel Grocki, Jian Zhang, Anne E. Shanahan, Ruihua Cheng, Peter A. Dowben Jun 2023

Optical Characterization Of Isothermal Spin State Switching In An Fe(Ii) Spin Crossover Molecular And Polymer Ferroelectric Bilayer, Saeed Yazdani, Kourtney Collier, Grace Yang, Jared Phillips, Ashley Dale, Aaron Mosey, Samuel Grocki, Jian Zhang, Anne E. Shanahan, Ruihua Cheng, Peter A. Dowben

Department of Physics and Astronomy: Faculty Publications

Using optical characterization, it is evident that the spin state of the spin crossover molecular complex [Fe{H2B(pz)2}2(bipy)] (pz = tris(pyrazol-1-1y)-borohydride, bipy = 2,2′-bipyridine) depends on the electric polarization of the adjacent polymer ferroelectric polyvinylidene fluoride-hexafluoropropylene (PVDF-HFP) thin film. The role of the PVDF-HFP thin film is significant but complex. The UV–Vis spectroscopy measurements reveals that room temperature switching of the electronic structure of [Fe{H2B(pz)2}2(bipy)] molecules in bilayers of PVDF-HFP/[Fe{H2B(pz)2}2(bipy)] occurs as a function of ferroelectric polarization. The retention of voltage-controlled nonvolatile changes …