Life Sciences Commons^™

Persistent Viral Reservoirs In Lymphoid Tissues In Siv-Infected Rhesus Macaques Of Chinese-Origin On Suppressive Antiretroviral Therapy, Summer Siddiqui, Stefanie Perez, Yong Gao, Lara Doyle-Meyers, Brian T. Foley, Qingsheng Li, Binhua Ling

Nebraska Center for Virology: Faculty Publications

Understanding HIV latent reservoirs in tissues is essential for the development of new strategies targeting these sites for eradication. Here, we assessed the size of latent reservoirs and the source of residual viruses in multiple lymphoid tissues of SIV-infected and fully suppressed rhesus macaques of Chinese-origin (cRMs). Eight cRMs were infected with SIVmac251 and treated with tenofovir and emtricitabine daily for 24 weeks initiated 4 weeks post-infection. Four of the eight animals reached sustained full viral suppression with undetectable viremia. The levels of cell-associated SIV DNA varied in peripheral blood mononuclear cells (PBMCs) and multiple lymphoid tissues, but with higher …

Relationship Between The Cervical Microbiome, Hiv Status, And Precancerous Lesions, Cameron Klein, Daniela Gonzalez, Kandali Samwel, Crispin Kahesa, Julius Mwaiselage, Nirosh Aluthge, Samodha Fernando, John T. West, Charles Wood, Peter C. Angeletti

Nebraska Center for Virology: Faculty Publications

Nearly all cervical cancers are causally associated with human papillomavirus (HPV). The burden of HPV-associated dysplasias in sub-Saharan Africa is influenced by HIV. To investigate the role of the bacterial microbiome in cervical dysplasia, cytobrush samples were collected directly from cervical lesions of 144 Tanzanian women. The V4 hypervariable region of the 16S rRNA gene was amplified and deep sequenced. Alpha diversity metrics (Chao1, PD whole tree, and operational taxonomic unit [OTU] estimates) displayed significantly higher bacterial richness in HIV-positive patients (P = 0.01) than in HIV-negative patients. In HIV-positive patients, there was higher bacterial richness in patients with …

A Single-Cycle Adenovirus Type 7 Vaccine For Prevention Of Acute Respiratory Disease, Brianna L. Bullard, Brigette N. Corder, Eric A. Weaver

Nebraska Center for Virology: Faculty Publications

Adenovirus type 7 (Ad7) infection is associated with acute respiratory disease (ARD), especially in military recruits living in close quarters. Recently, several outbreaks of Ad7 infections have occurred in civilian populations, with some cases leading to death. However, the current Ad7 vaccine is licensed for use only in military recruits because it utilizes an orally delivered wild type virus which is shed in the stool for 28 days after immunization. This poses a safety risk due to the possibility of virus spread to vulnerable populations. To address the need for a safer Ad7 vaccine for use in civilian populations, we …

A Double Humanized Blt-Mice Model Featuring A Stable Human-Like Gut Microbiome And Human Immune System, Lance Daharsh, Jianshui Zhang, Amanda E. Ramer-Tait, Qingsheng Li

Nebraska Center for Virology: Faculty Publications

Humanized mice (hu-mice) that feature a functional human immune system have fundamentally changed the study of human pathogens and disease. They can be used to model diseases that are otherwise difficult or impossible to study in humans or other animal models. The gut microbiome can have a profound impact on human health and disease. However, the murine gut microbiome is very different than the one found in humans. There is a need for improved pre-clinical hu-mice models that have an engrafted human gut microbiome. Therefore, we created double hu-mice that feature both a human immune system and stable human-like gut …

Design And Characterization Of A Consensus Hemagglutinin Vaccine Immunogen Against H3 Influenza A Viruses Of Swine, Haiyan Sun, Jung-Hyang Sur, Sarah Vitosh-Sillman, David J. Steffen, Hiep Vu

Nebraska Center for Virology: Faculty Publications

The substantial genetic diversity exhibited by influenza A viruses of swine (IAV-S) represents the main challenge for the development of a broadly protective vaccine against this important pathogen. The consensus vaccine immunogen has proven an effective vaccinology approach to overcome the extraordinary genetic diversity of RNA viruses. In this project, we sought to determine if a consensus IAV-S hemagglutinin (HA) immunogen would elicit broadly protective immunity in pigs. To address this question, a consensus HA gene (designated H3-CON.1) was generated from a set of 1,112 H3 sequences of IAV-S recorded in GenBank from 2011 to 2015. The consensus HA gene …

The Vaccinia Virus (Vacv) B1 And Cellular Vrk2 Kinases Promote Vacv Replication Factory Formation Through Phosphorylation-Dependent Inhibition Of Vacv B12, Annabel T. Olson, Zhigang Wang, Annabel Olson, Alexandria C. Linville, Brianna L. Bullard, Eric A. Weaver, Clinton Jones, Matthew S. Wiebe

Nebraska Center for Virology: Faculty Publications

Comparative examination of viral and host protein homologs reveals novel mechanisms governing downstream signaling effectors of both cellular and vi- ral origin. The vaccinia virus B1 protein kinase is involved in promoting multiple facets of the virus life cycle and is a homolog of three conserved cellular enzymes called vaccinia virus-related kinases (VRKs). Recent evidence indicates that B1 and VRK2 mediate a com- mon pathway that is largely uncharacterized but appears independent of previous VRK substrates. Interestingly, separate studies described a novel role for B1 in inhibiting vac- cinia virus protein B12, which otherwise impedes an early event in the …

Potential Role Of Wildlife In The Usa In The Event Of A Foot-And-Mouth Disease Virus Incursion, Vienna R. Brown, Sarah N. Bevins

USDA Wildlife Services: Staff Publications

Foot-and-mouth disease (FMD) is caused by foot-and-mouth disease virus (FMDV) which affects domestic and wild cloven-hoofed species. The FMD-free status of the USA and the tremendous economic impact of a virus incursion motivated the development of this evaluation of the potential role of wildlife in the event of a virus introduction. Additionally, this manuscript contains a summary of US vulnerabilities for viral incursion and persistence which focuses specifically on the possible role of wildlife. The legal movement of susceptible live animals, animal products, by-products and animal feed containing animal products pose a risk of virus introduction and spread. Additionally, the …

A Bioeconomic Model For The Optimization Of Local Canine Rabies Control, Aaron Anderson, Johann Kotze, Stephanie A. Shwiff, Brody Hatch, Chris Slootmaker, Anne Conan, Darryn Knobel, Louis H. Nel

USDA Wildlife Services: Staff Publications

We present a new modeling tool that can be used to maximize the impact of canine rabies management resources that are available at the local level. The model is accessible through a web-based interface that allows for flexibility in the management strategies that can be investigated. Rabies vaccination, sterilization, chemo-contraception, and euthanasia can be specified and limited to specific demographic groups. Additionally, we allowed for considerable complexity in the specification of management costs. In many areas, the costs of contacting additional dogs increases as management effort increases, and this can have important strategic implications. We illustrated the application of the …

Black Bear Use Of Forest Roads In Western Washington, Gary W. Witmer

USDA Wildlife Services: Staff Publications

Radiolocations (108) of 20 black bears were used to assess use or avoidance of 3 forest road types in western Washington. Distances of bears to each type of road were compared to distances of 108 random points using t-tests. Females and males avoided 2-lane roads, while only males avoided 1-lane roads, the most common road type in the area. Females, but not males, were located closer to overgrown, spur roads than expected. This road type has substantial cover of grasses, forbs, and berry-producing shrubs along with protective tree cover. This situation may provide easy travel for females along with security …

Urolithin A, A Gut Metabolite, Improves Insulin Sensitivity Through Augmentation Of Mitochondrial Function And Biogenesis, Ashley Mulcahy Toney, Rong Fan, Yibo Xian, Virginia Chaidez, Amanda E. Ramer-Tait, Soonkyu Chung

Department of Nutrition and Health Sciences: Faculty Publications

Objective: Urolithin A (UroA) is a major metabolite of ellagic acid produced following microbial catabolism in the gut. Emerging evidence has suggested that UroA modulates energy metabolism in various cells. However, UroA’s physiological functions related to obesity and insulin resistance remain unclear. Methods: Male mice were intraperitoneally administrated either UroA or dimethyl sulfoxide (vehicle) along with a high-fat diet for 12 weeks. Insulin sensitivity was evaluated via glucose and insulin tolerance tests and acute insulin signaling. The effects of UroA on hepatic triglyceride accumulation, adipocyte size, mitochondrial DNA content, and proinflammatory gene expressions were determined. The impact of UroA on …

Dynamic Effects Of Habituation And Novelty Detection On Newborn Event Related Potentials, Cathryn S. Cortesa, Caitlin M Hudac, Dennis Molfese

Center for Brain, Biology, and Behavior: Faculty and Staff Publications

Newborns habituate to repeated auditory stimuli, and discriminate syllables, generating opportunities for early language learning. This study investigated trial-by-trial changes in newborn electrophysiological responses to auditory speech syllables as an index of habituation and novelty detection. Auditory event-related potentials (ERPs) were recorded from 16 term newborn infants, aged 1–3 days, in response to monosyllabic speech syllables presented during habituation and novelty detection tasks. Multilevel models demonstrated that newborns habituated to repeated auditory syllables, as ERP amplitude attenuated for a late-latency component over successive trials. Subsequently, during the novelty detection task, earlyand late-latency component amplitudes decreased over successive trials for novel …

Functional Source Separation For Eeg-Fmri Fusion: Application To Steady-State Visual Evoked Potentials, Hong Ji, Badong Chen, Nathan M. Petro, Zejian Yuan, Nanning Zheng, Andreas Keil

Center for Brain, Biology, and Behavior: Faculty and Staff Publications

Neurorobotics is one of the most ambitious fields in robotics, driving integration of interdisciplinary data and knowledge. One of the most productive areas of interdisciplinary research in this area has been the implementation of biologically-inspired mechanisms in the development of autonomous systems. Specifically, enabling such systems to display adaptive behavior such as learning from good and bad outcomes, has been achieved by quantifying and understanding the neural mechanisms of the brain networks mediating adaptive behaviors in humans and animals. For example, associative learning from aversive or dangerous outcomes is crucial for an autonomous system, to avoid dangerous situations in the …

Confirmatory Factor Analysis Of Two Computerized Neuropsychological Test Batteries: Immediate Post-Concussion Assessment And Cognitive Test (Impact) And C3 Logix, Caitlin Masterson, Julie Tuttle, Arthur C. Maerlender

Center for Brain, Biology, and Behavior: Faculty and Staff Publications

Introduction: Tests of memory and speed of cognitive and motor responses have been the primary foci in sports-related concussion assessment. This study sought to assess the construct validity of neuropsychological tests within C3 Logix.

Method: Results of both baseline C3 Logix and the Immediate Post-Concussion Assessment and Cognitive Test (ImPACT) computerized tests from 86 Division I collegiate athletes were submitted to a two-factor confirmatory analysis using structural equation modeling. The two factors of Speed and Memory have been confirmed in previous studies of ImPACT.

Results: Results confirmed the two-factor model of ImPACT, whereas C3 Logix did not …

Concussion Competencies: A Training Model For School-Based Concussion Management, Arthur C. Maerlender, Jonathan D. Lichtenstein, Jennifer Parent-Nichols, Kate Higgins, Peggy Reisher

Center for Brain, Biology, and Behavior: Faculty and Staff Publications

This study reports on the use of ten knowledge competencies related to the behavioral management of concussion in schools. Trainings using these competencies as learning objectives were delivered to school personnel. This aims of the use of competencies in this way are to streamline the education of key stakeholders, to establish clear roles and responsibilities for constituents and equip individuals working with students following a concussion with the relevant knowledge to optimize outcomes. The majority of participants, primarily speech language pathologists working as related service providers in the schoolswhere the trainings occurred, judged the use of the competencies to be …

Impact Of Corn Silage Inclusion On Finishing Cattle Performance, Hannah C. Hamilton, F. Henry Hilscher, Zachary E. Carlson Carlson, Brad M. Boyd, Andrea K. Watson, Jim C. Macdonald, Galen E. Erickson

Nebraska Beef Cattle Reports

Cattle fed high grain diets with little to no roughage are typically at greater risk for acidosis and reduced dry matter intake and average daily gain. An individual feeding study was conducted to compare different inclusions of corn silage used as a roughage source on finishing performance and liver abscess rate. Treatments consisted of 3 inclusions of corn silage at 0, 7.5 and 15% of the diet DM and a control treatment with 7.5% alfalfa. There were no differences for live animal performance or carcass characteristics. There were also no differences in liver abscess incidence. Feeding corn silage at 15% …

Three Year Summary: Comparison Of Diets Collected From Esophageally Fistulated Cows To Forage Quality Estimated From Fecal Analysis, Bethany M. Johnston, Jay D. Jenkins, Jacki A. Musgrave Musgrave, J. Travis Mulliniks, Mitchell B. Stephenson, James C. Macdonald, L. Aaron Stalker

Nebraska Beef Cattle Reports

Inconsistency was found in forage quality (crude protein and energy) when esophageally fistulated diets were compared to Nutrition Balance Analyzer (NUTBAL) analysis of fecal samples. On upland range sites, hand-clipping of samples (not a recommended practice to measure forage quality), was closer to fistulated diets than NUTBAL analysis. If cattle managers are solely utilizing NUTBAL for estimates of forage value, incorrect supplemental energy and protein decisions will likely be made resulting in the purchase of unnecessary supplements, thereby reducing the profitability of the operation.

Prediction Of Energy Value (Tdn) In Grazed And Hayed Forages, Terry J. Klopfenstein, Mary E. Drewnoski, Karla H. Jenkins Jenkins

Nebraska Beef Cattle Reports

The goal of producers and nutritionists is to meet the nutritional needs of their cattle. Requirements are well established, but the diets of grazing cattle are difficult to predict. Selection by the animal, sample handling, lab analysis, and relating the lab analysis to the animal are issues that have been researched the last 20 years. Based on that research, data have been compiled to predict the energy and protein values of grazed Sandhills range, meadows, smooth brome, and corn residue. Additionally, equations used by commercial labs to predict the TDN of grass hays based on ADF were compared to TDN …

Nitrate Concentrations Of Annual Forages Grown For Grazing In Nebraska, Mary E. Lenz, Rebecca J. Kern, Carrie E. Orvis Orvis, Mary E. Drewnoski

Nebraska Beef Cattle Reports

Annual forage samples sent by producers to Ward Laboratories Inc. for nitrate analysis were evaluated to determine which cover crop species in Nebraska are most likely to accumulate nitrates, and how often the accumulated nitrates are considered toxic by traditional recommendations. Additionally, nitrate levels of cover crop mixes grown in research trials were analyzed to ensure species differences were repeated when grown together in the same fields. Brassicas accumulate more nitrate than small grains, millet, sorghum/sudan grasses, or cover crop mixes. Brassicas accumulated levels of nitrate considered moderately to highly toxic in 48% of the samples. The other cover crop …

Effects Of Isolated Nutrients In Distillers Grains On Total Tract Digestibility And Digestible Energy In Forage Diets, Tasha M. King, Melissa L. Jolly-Breithaupt, Hannah C. Hamilton Hamilton, Galen E. Erickson, Jim C. Macdonald

Nebraska Beef Cattle Reports

A digestion study was conducted to evaluate the contribution of individual nutrient components of distillers grains on nutrient digestibility and digestible energy. All diets contained 56% brome hay with a control diet containing either 40% corn; or 40% modified distillers grains. Four additional diets compared the contribution of fat, protein, fiber, and solubles components of distillers grains. No differences were observed for digestibility of DM, OM, and NDF among treatments. Feeding the isolated protein resulted in similar digestible energy to modified distillers grains, suggesting the bypass protein component contributes heavily to energy in distillers.

Impacts Of 40 Years Of The Gudmundsen Sandhills Laboratory On Beef Cattle And Range Systems, Jack C. Whittier, Kelly W. Bruns, Rick N. Funston Funston, Jerry D. Volesky, Terry J. Klopfenstein, Don C. Adams

Nebraska Beef Cattle Reports

The University of Nebraska (UNL) Gudmundsen Sandhills Laboratory (GSL) is a 12,800-acre research ranch in the Nebraska Sandhills. In 1978, Elmer “Pete” and Abbie Gudmundsen gifted the former Rafter C Ranch to the University of Nebraska Foundation. Thus, 2018 was the 40th year of UNL oversight of GSL. To the credit of UNL Administration, GSL development for range livestock research was delegated to a team of Research and Extension Specialists chaired by Dr. Don Clanton. Other members of that original team were Jim Nichols, Range Science; Gene Deutscher, Reproductive Physiologist; Dick Clark, Agricultural Economist; and Ivan Rush, Beef Extension Specialist. …

Effects Of Maternal Late Gestation Nutrition On May-Born Heifer Progeny, Alicia C. Lansford, Jacki A. Musgrave, Rick N. Funston Funston

Nebraska Beef Cattle Reports

May-calving dams in late gestation grazed either sub-irrigated meadow with or without supplement or upland range with or without supplement. Supplementation was 1 lb/d of a 33% CP (DM) supplement. Heifer progeny from these dams were followed through their first and second breeding seasons. Both dam grazing and supplement treatment affected heifer progeny BW and BCS. Heifers born to dams who grazed meadow in late gestation attained a greater percentage of mature BW at the start of their first breeding season and increased pregnancy rates as primiparous cows. Grazing of meadow by May-calving dams in late gestation may increase stayability …

Evaluation Of Corn Bran Plus Solubles On Performance And Carcass Characteristics In Finishing Diets, Shelby A. Garland, Bradley M. Boyd, F. Henry Hilscher Hilscher, Galen E. Erickson, Jim C. Macdonald, Ryan A. Mass

Nebraska Beef Cattle Reports

A finishing study was conducted to determine the effect of feeding corn bran plus solubles, a new feed resulting from a pre-fermentation fiber removal process, compared to wet distillers grains plus solubles at two levels of inclusion (20% and 40% of diet DM). Intake increased with inclusion of byproduct, and steers fed 20% wet distillers had the greatest intakes numerically. Byproduct inclusion, regardless of type, increased daily gain over the corn-based control. Feed conversions were improved with increased inclusion of both Bran + Solubles and wet distillers, and both were superior to the control. Increased inclusion of both byproducts resulted …

Evaluation Of An Algal Biomass As An Ingredient In Cattle Feed, Mitchell M. Norman, Zachary E. Carlson, F. Henry Hilscher Hilscher, Andrea K. Watson, Galen E. Erickson, Bruce W. Brodersen, J. Dustin Loy, Jonathan W. Wilson

Nebraska Beef Cattle Reports

A study was conducted evaluating the effects of feeding condensed algal residue solubles (CARS; available in 2019 in Blair, NE area) to finishing cattle for 100 days. Four levels of CARS were evaluated with 5 steers and 5 heifers individually fed per level of inclusion. The diets consisted of 70% dry rolled corn with CARS displacing corn at 0, 2.5, 5, and 7.5% of dry matter. Increasing CARS inclusion resulted in a linear decrease in intake, a quadratic increase in daily gain, and a linear decrease in feed:gain. Calculations showed a linear increase in dietary net energy as …

Evaluation Of Reimplant Window With Revalor-200 ® On Steer Performance And Carcass Characteristics, Caitlin A. Ohnoutka, Brad M. Boyd, F. Henry Hilscher Hilscher, Brandon L. Nuttelman, Grant I. Crawford, Jim C. Macdonald, Galen E. Erickson

Nebraska Beef Cattle Reports

A feedlot study utilizing 800 crossbred steers (initial BW = 727 ± 55 lb) compared 5 different terminal implant (Revalor-200) times (160, 120, 100, 80, or 40 d prior to harvest) for steers fed 180 days on performance and carcass characteristics. All steers were implanted with Revalor-IS as an initial implant at trial initiation. Carcass-adjusted final BW, ADG, and F:G responded quadratically, with cattle implanted 80 to 120 d prior to harvest being the greatest. However, there was less than a 2% difference in performance between 120 and 80 days on terminal implant. Hot carcass weight responded quadratically, with no …

The Prevotella Copri Complex Comprises Four Distinct Clades Underrepresented In Westernized Populations, Adrian Tett, Kun D. Huang, Francesco Asnicar, Hannah Fehlner-Peach, Edoardo Pasolli, Nicolai Karcher, Federica Armanini, Paolo Manghi, Kevin Bonham, Moreno Zolfo, Francesca De Filippis, Cara Magnabosco, Richard Bonneau, John Lusingu, John Amuasi, Karl Reinhard, Thomas Rattei, Fredrik Boulund, Lars Engstrand, Albert Zink, Maria Carmen Collado, Dan R. Littman, Daniel Eibach, Danilo Ercolini, Omar Rota-Stabelli, Curtis Huttenhower, Frank Maixner, Nicola Segata

Karl Reinhard Publications

Prevotella copri is a common human gut microbe that has been both positively and negatively associated with host health. In a cross-continent metaanalysis exploiting >6,500 metagenomes, we obtained >1,000 genomes and explored the genetic and population structure of P. copri. P. copri encompasses four distinct clades (>10% inter-clade genetic divergence) that we propose constitute the P. copri complex, and all clades were confirmed by isolate sequencing. These clades are nearly ubiquitous and co-present in non-Westernized populations. Genomic analysis showed substantial functional diversity in the complex with notable differences in carbohydrate metabolism, suggesting that multi-generational dietary modifications may be …

Imaging Coprolite Taphonomy And Preservation, Karl Reinhard, Morgana Camacho, Breyden Geyer, Samantha Hayek, Chase Horn, Kaitlin Otterson, Julia Russ

Karl Reinhard Publications

The impact of coprolite taphonomy on parasite remains and aDNA recovery has been recognized. In general, coprolites from sites protected by geologic features such as caves and rock shelters exhibit the best preservation. In contrast, coprolites from open sites can be badly affected by taphonomic processes as shown by analyses of parasite eggs. For eggs, the impact of mites and free living nematodes has been quantified. Mites are associated with poor pinworm egg preservation. In other studies, percolation of water through sediments has a negative impact on egg recovery. We note that dietary remains can also decompose at open sites. …