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Effects Of Antiretroviral Therapy On Kaposi’S Sarcoma–Associated Herpesvirus (Kshv) Transmission Among Hiv-Infected Zambian Children, Landon Olp, Veenu Minhas, Clement Gondwe, Chipepo Kankasa, Janet M. Wojcicki, Charles Mitchell, John T. West, Charles Wood

Nebraska Center for Virology: Faculty Publications

Background: The risk of Kaposi’s sarcoma–associated herpesvirus (KSHV) acquisition among children is increased by HIV infection. Antiretroviral therapy (ART) was recently made widely available to HIV-infected children in Zambia. However, the impact of early ART on KSHV transmission to HIV-infected children is unknown.

Methods: We enrolled and followed a cohort of 287 HIV-exposed, KSHV-negative children under 12 months of age from Lusaka, Zambia, to identify KSHV seroconversion events. Potential factors associated with KSHV infection—with an emphasis on HIV, ART, and immunological measures—were assessed through structured questionnaires and blood analyses. Incidence rate, Kaplan- Meier, and multivariable Cox regression models were used …

Peptides: A Package For Data Mining Of Antimicrobial Peptides, Daniel Osorio, Paola Rondón-Villarreal, Rodrigo Torres

The R Journal

Antimicrobial peptides (AMP) are a promising source of antibiotics with a broad spectrum activity against bacteria and low incidence of developing resistance. The mechanism by which an AMPexecutes its function depends on a set of computable physicochemical properties from the amino acid sequence. The Peptides package was designed to allow the quick and easy computation of ten structural characteristics own of the antimicrobial peptides, with the aim of generating data to increase the accuracy in classification and design of new amino acid sequences. Moreover, the options to read and plot XVG output files from GROMACS molecular dynamics package are included.

Who’S To Blame? Blame Attributions And Obesity-Related Law And Policy, Lindsey E. Wylie

Department of Psychology: Dissertations, Theses, and Student Research

Obesity is a foremost public health concern that has received considerable attention. Because of this so-named “epidemic,” law-makers are challenged with implementing effective policies that the public supports. Little is known, however, about the antecedents and consequences of these policies—especially attributions of blameworthiness. Study 1 developed the Obesity Blame Attribution Scale (OBAS). Confirmatory factor analysis demonstrated that controllability, responsibility and dispositional blame were separate constructs and were part of a higher-order dispositional blame factor. Situational blame was a separate higher-order factor, not correlated with dispositional blame, consisting of blame toward the food industry and towards government policy. Using the OBAS, …

West Nile Virus And Ferruginous Hawks (Buteo Regalis) In The Northern Great Plains, Shubham Datta, Jonathan A. Jenks, David E. Knudsen, Kent C. Jensen, Will M. Inselman, Christopher C. Swanson, Troy W. Grovenburg

The Prairie Naturalist

Emerging infectious diseases (EID) present significant threats to the conservation of global biodiversity (Daszak et al. 2000). Evaluating impacts (spatial, temporal and demographic) of EIDs on sensitive and declining wildlife populations is challenging because quantitative information is usually dependent on estimates rather than counts (Wobeser 2007) and mortality rates are seldom quantified with conventional monitoring (Naugle et al. 2005).

West Nile virus (WNv), a mosquito-borne Flavivirus (family Flaviviridae; Komar 2001), was discovered in northwest Uganda in 1937 (Smithburn et al. 1940). First encountered in the western hemisphere in New York in 1999 (Nash et al. 2001), WNv has become enzootic …

The R Journal (June 2015) 7(1): Complete Issue, The R Foundation

The R Journal

Editorial, Bettina Grün

Contributed Research Articles

Peptides: A Package for Data Mining of Antimicrobial Peptides, Daniel Osorio, Paola Rondón-Villarreal, and Rodrigo Torres

fanplot: An R Package for Visualising Sequential Distributions, Guy J. Abel

sparkTable: Generating Graphical Tables for Websites and Documents with R, Alexander Kowarik, Bernhard Meindl, and Matthias Templ

rdrobust: An R Package for Robust Nonparametric Inference in Regression-Discontinuity Designs, Sebastian Calonico, Matias D. Cattaneo, and Rocío Titiunik

Frames2: A Package for Estimation in Dual Frame Surveys, Antonio Arcos, David Molina, Maria Giovanna Ranalli, and María del Mar Rueda

The Complex Multivariate Gaussian Distribution, Robin K. S. Hankin

sae: …

Fecal Volatile Organic Ccompound Profiles From White-Tailed Deer (Odocoileus Virginianus) As Indicators Of Mycobacterium Bovis Exposure Or Mycobacterium Bovis Bacille Calmette-Guerin (Bcg) Vaccination, Randal S. Stahl, Christine K. Ellis, Pauline Nol, W. Ray Waters, Kurt C. Vercauteren

United States Department of Agriculture Wildlife Services: Staff Publications

White-tailed deer (Odocoileus virginianus) serve as a reservoir for bovine tuberculosis, caused by Mycobacterium bovis, and can be a source of infection in cattle. Vaccination with M. bovis Bacille Calmette Guerin (BCG) is being considered for management of bovine tuberculosis in deer. Presently, no method exists to non-invasively monitor the presence of bovine tuberculosis in deer. In this study, volatile organic compound profiles of BCG-vaccinated and non-vaccinated deer, before and after experimental challenge with M. bovis strain 95–1315, were generated using solid phase microextraction fiber head-space sampling over suspended fecal pellets with analysis by gas chromatography/mass spectrometry. …

Nsf Grant Helps Preserve Parasite Collections [Press Release], Scott Gardner, Leslie Reed

Scott L. Gardner Publications

The National Science Foundation has awarded a $500,000 grant that will allow four major parasite collections to be digitized. The collections are part of UNL's Harold W. Manter Laboratory of Parasitology. Scott Gardner (pictured) is the curator and director of the Manter Laboratory.

A $500,000 grant from the National Science Foundation will allow the Harold W. Manter Laboratory of Parasitology to digitally preserve four major collections of parasite specimens donated to the University of Nebraska-Lincoln during the past five years.

A Multilaboratory Comparison Of Calibration Accuracy And The Performance Of External References In Analytical Ultracentrifugation, Huaying Zhao, Rodolfo Ghirlando, Carlos Alfonso, Fumio Arisaka, Ilan Attali, David L. Bain, Et Al. ..., Donald F. Becker, Peter Schuck

Department of Biochemistry: Faculty Publications

Analytical ultracentrifugation (AUC) is a first principles based method to determine absolute sedimentation coefficients and buoyant molar masses of macromolecules and their complexes, reporting on their size and shape in free solution. The purpose of this multi-laboratory study was to establish the precision and accuracy of basic data dimensions in AUC and validate previously proposed calibration techniques. Three kits of AUC cell assemblies containing radial and temperature calibration tools and a bovine serum albumin (BSA) reference sample were shared among 67 laboratories, generating 129 comprehensive data sets. These allowed for an assessment of many parameters of instrument performance, including accuracy …

Effect Of A Trace Mineral Injection On Beef Cattle Performance, Carmen J. Brasche

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

Adequate trace mineral status is important in beef cow/calf and replacement heifer systems because trace minerals play vital roles in reproduction, immunity and growth. Many experiments have investigated the use of a trace mineral injection containing Cu, Mn, Se and Zn (TMI) on growth and immunity of beef cattle. However, very few have investigated TMI use on reproductive performance. Therefore, five experiments, a two year cow/calf experiment, and four replacement heifer experiments were designed to investigate the use of a TMI on reproductive performance of cows and heifers, calf growth and trace mineral status of cows, heifers, and calves. The …

Effect Of The Physical Environment On Teacher Satisfaction With Indoor Environmental Quality In Early Learning Schools, Stuart Shell

Durham School of Architectural Engineering and Construction: Dissertations, Theses, and Student Research

While the quantity and quality of teacher-child interactions plays a key role in emotional and cognitive development for children, there is scant evidence regarding the contribution of physical environment to child outcomes. This study seeks to understand better the relative importance of variables within the physical environment for occupants. The research design targets teachers’ satisfaction with the physical environment as the outcome variable, based on the assumption that teachers who are more satisfied with their classroom provide higher-quality interactions with children. Teachers from two early learning schools with a total of 31 classrooms completed a written survey that asked about …

Bioenergetics And Habitat Suitability Models For The Chinese Mystery Snail (Bellamya Chinensis), Danielle M. Haak

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

Relatively little is known about the invasive Chinese mystery snail (Bellamya chinensis). This research aims to elucidate some of the mystery surrounding this species. First, we place the species in context with other invasive freshwater snails of the USA and Canada, identifying current information gaps, categorizing shared characteristics among families and species, and comparing functional roles and ecological effects of freshwater snails. We conclude that more focus needs to be directed to regulating the aquarium, pet, and food trades if we are serious about preventing future invasions. Next, we develop a bioenergetics model for the species by quantifying …

Genetic Variability And Geographic Diversity Of The Common Bed Bug (Hemiptera: Cimicidae) Populations From The Midwest Using Microsatellite Markers, Ralph B. Narain, Sreedevi Madhusoodhanan Lalithambika, Shripat T. Kamble

Department of Entomology: Faculty Publications

With the recent global resurgence of the bed bugs (Cimex lectularius L.), there is a need to better understand its biology, ecology, and ability to establish populations. Bed bugs are domestic pests that feed mainly on mammalian blood. Although bed bugs have not been implicated as vectors of pathogens, their biting activity inflicts severe insomnia and allergic reactions. Moreover, they have recently developed resistance to various insecticides, which requires further molecular research to determine genetic variation and appropriate interventions. Population dynamics, including genetic differentiation and genetic distance of 10 populations from the Midwest were analyzed in this study. …

Everything Changed: Experiences Of International Students Affected By A Home Country Crisis, Caitlin J. Mcvay

Department of Educational Administration: Dissertations, Theses, and Student Research

The population of international students studying in the United States continues to break record enrollments each year, growing to 886,052 students in 2014 according to Institute of International Education (IIE) data (IIE, 2014b). As these numbers increase, so too do the numbers of students affected by crises in their home countries. These students face a number of adjustment issues unique to their situations, and may require additional support from administrators and others at their institutions. This qualitative, phenomenological study explores the experiences of five international students who studied at two public universities in the western United States while large-scale crises …

Osteomyelitis Associated With Nocardiopsis Composta In A Dog, Elisa N. Salas, Debra Royal, Lance Kurz, J. Dustin Loy

School of Veterinary and Biomedical Sciences: Faculty Publications

Osteomyelitis can be caused by bacterial or fungal agents or may be idiopathic. Cocci, bacilli, and filamentous bacteria such as members of the Actinomycetes have all been determined to be causes of osteomyelitis. Differential diagnoses for Gram-positive filamentous rods in the family Actinomycetales causing osteomyelitis in the dog, include members of the more frequently encountered genera Nocardia and Actinomyces. Bacteria gain access to the bone via several routes but are most often associated with direct inoculation (such as percutaneous injuries, compound fractures, or secondary to foreign bodies such as surgical or other material including dirt and wood) and fracture …

Characterization And Investigation Of Fungi Inhabiting The Gastrointestinal Tract Of Healthy And Diseased Humans, Mallory J. Suhr

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

Gastrointestinal microbiome studies have failed to include fungi in total community analyses. As a result, their diversity and function in the gut is poorly understood. Recent work has begun to uncover the role intestinal fungi play in diet, immune system development, interactions with other microorganisms in the gut, and pathogenesis of diseases. Advances in sequencing technologies allow for the ability to profile the fungal gut microbiome (“mycobiome”) in healthy and diseased states. This thesis explores the mycobiome in 1) healthy humans with a vegetarian diet and 2) pediatric small bowel transplant recipients that develop fungal bloodstream infections.

The gut mycobiome …

Nsf Grant Helps Preserve Parasite Collections, Leslie Reed

Harold W. Manter Laboratory of Parasitology: Faculty Publications

The National Science Foundation has awarded a $500,000 grant that will allow four major parasite collections to be digitized. The collections are part of UNL's Harold W. Manter Laboratory of Parasitology. Scott Gardner (pictured) is the curator and director of the Manter Laboratory. A $500,000 grant from the National Science Foundation will allow the Harold W. Manter Laboratory of Parasitology to digitally preserve four major collections of parasite specimens donated to the University of Nebraska-Lincoln during the past five years.

The Gut Microbiota Of Rural Papua New Guineans: Composition, Diversity Patterns, And Ecological Processes, Ines Martinez, James C. Stegen, Maria X. Maldonado-Gomez, A. Murat Eren, Peter M. Siba, Andrew R. Greenhill, Jens Walter

Department of Food Science and Technology: Faculty Publications

Although recent research revealed an impact of westernization on diversity and composition of the human gut microbiota, the exact consequences on metacommunity characteristics are insufficiently understood, and the underlying ecological mechanisms have not been elucidated. Here, we have compared the fecal microbiota of adults from two non-industrialized regions in Papua New Guinea (PNG) with that of United States (US) residents. Papua New Guineans harbor communities with greater bacterial diversity, lower inter-individual variation, vastly different abundance profiles, and bacterial lineages undetectable in US residents. A quantification of the ecological processes that govern community assembly identified bacterial dispersal as the dominant process …

Growing A Healthy Future, Spring 2015

Institute of Agriculture and Natural Resources: Institute Publications

Combating obesity; Unique virus research; Building the campus; Women in Agriculture; Marketing ups and downs ;1roadband Reaching Out; Weathering a new major; Birds of different feathers; Growing communities; Farm bill expertise; Giving back

Relationship Between Heat-Labile Enterotoxin Secretion Capacity And Virulence In Wild Type Porcine-Origin Enterotoxigenic Escherichia Coli Strains, Prageeth Wijemanne, Jun Xing, Emil M. Berberov, David B. Marx, David H. Francis, Rodney A. Moxley

School of Veterinary and Biomedical Sciences: Faculty Publications

Heat-labile enterotoxin (LT) is an important virulence factor secreted by some strains of enterotoxigenic Escherichia coli (ETEC). The prototypic human-origin strain H10407 secretes LT via a type II secretion system(T2SS). We sought to determine the relationship between the capacity to secrete LT and virulence in porcine-origin wild type (WT) ETEC strains. Sixteen WT ETEC strains isolated from cases of severe diarrheal disease were analyzed by GM1ganglioside enzyme- linked immunosorbent assay tomeasure LT concentrations in culture supernatants. All strains had detectable LT in supernatants by 2 h of culture and 1 strain, which was particularly virulent in gnotobiotic piglets (3030-2), had …

Environmental Microbes And Uveitis: Is Microbial Exposure Always Bad?, Chandirasegaran Massilamany, A. Gangaplara, J. Reddy

School of Veterinary and Biomedical Sciences: Faculty Publications

The eye generally is considered to be an immune-privileged organ, but this notion is being increasingly challenged as ocular antigens can be expressed in the generative lymphoid organs, resulting in attainment of self-tolerance. What triggers a break in this tolerant state is a fundamental question in autoimmunity research. The general belief is that exposure to environmental microbes can break self-tolerance in genetically susceptible individuals, leading to the induction of autoimmune responses. The molecular mimicry hypothesis has been proposed as one major mechanistic, pathway through which microbes, by generating crossreactive immune responses, can induce ocular damage of the kind that might …

Taphonomic Considerations For The Analysis Of Parasites From Archaeological Contexts, Johnica J. Morrow, Dario Piombino-Mascali, Karl J. Reinhard

Harold W. Manter Laboratory of Parasitology: Faculty Publications

Discusses the role of taphonomy in archaeaoparasitology investigations. Enumerates various factors involved in preservation techniques. Gives cases from Lithuania, Belgium, and Italy. Concludes that considering the taphonomic factors associated with archaeological materials is a vital component in the interpretation of archaeoparasitological data.

The Parasite Ichthyophonus Sp. In Pacific Herring From The Coastal Ne Pacific, P K. Hershberger, J L. Gregg, L M. Hart, S Moffitt, R Brenner, K Stick, E Coonradt, E O. Otis, J J. Vollenweider, K A. Garver, J Lovy, T R. Meyers

United States Department of Commerce: Staff Publications

The protistan parasite Ichthyophonus occurred in populations of Pacific herring Clupea pallasii Valenciennes throughout coastal areas of the NE Pacific, ranging from Puget Sound, WA north to the Gulf of Alaska, AK. Infection prevalence in local Pacific herring stocks varied seasonally and annually, and a general pattern of increasing prevalence with host size and/or age persisted throughout the NE Pacific. An exception to this zoographic pattern occurred among a group of juvenile, age 1+ year Pacific herring from Cordova Harbor, AK in June 2010, which demonstrated an unusually high infection prevalence of 35%. Reasons for this anomaly were hypothesized to …

Ectoparasitism Shortens The Breeding Season In A Colonial Bird, Charles R. Brown, Mary Bomberger Brown

School of Natural Resources: Faculty Publications

When blood-feeding parasites increase seasonally, their deleterious effects may prevent some host species, especially those living in large groups where parasites are numerous, from reproducing later in the summer. Yet the role of parasites in regulating the length of a host’s breeding season—and thus the host’s opportunity for multiple brooding—has not been systematically investigated. The highly colonial cliff swallow (Petrochelidon pyrrhonota), a temperate-latitude migratory songbird in the western Great Plains, USA, typically has a relatively short (eight to nine week) breeding season, with birds rarely nesting late in the summer. Colonies at which ectoparasitic swallow bugs (Oeciacus vicarius) were experimentally …

Engaging Teenagers With Science Through Comics, Judy Diamond

Discipline-Based Education Research Group Speaker Series

Graphic novels or comics are powerful tools to motivate youth to become interested in science. Embedding science concepts into a story with graphics that appeal to teen culture makes abstract content approachable, stimulates youth interest, and promotes learning. This presentation will discuss the goals of the NIH‐funded World of Viruses and Biology of Human comic series and the research results that support using these approaches.

The Leishmania Years At Unl (Or, My Life As A Cell Biologist, 1966-1981), John J. Janovy Jr.

Harold W. Manter Laboratory of Parasitology: Faculty Publications

Slides for a talk during which Professor Janovy discussed the methods he used in researching Leishmania during the years 1966-1981. Includes lists of references.

A New Method For Estimating Species Age Supports The Coexistence Of Malaria Parasites And Their Mammalian Hosts, Joana C. Silva, Amy Egan, Cesar Arze, John L. Spouge, David G. Harris

Harold W. Manter Laboratory of Parasitology: Library Materials

Species in the genus Plasmodium cause malaria in humans and infect a variety of mammals and other vertebrates. Currently, estimated ages for several mammalian Plasmodium parasites differ by as much as one order of magnitude, an inaccuracy that frustrates reliable estimation of evolutionary rates of disease-related traits. We developed a novel statistical approach to dating the relative age of evolutionary lineages, based on Total Least Squares regression. We validated this lineage dating approach by applying it to the genus Drosophila. Using data from the Drosophila 12 Genomes project, our approach accurately reconstructs the age of well-established Drosophila clades, including …

Research At The University Of Nebraska-Lincoln: 2014-2015 Report, Vicki Miller, Ashley Washburn, Monica Norby, Elizabeth Banset, Gillian Klucas

Office of Research and Economic Development: Publications

The 2014-2015 UNL Research Report, published by the University of Nebraska-Lincoln Office of Research and Economic Development, highlights some of the diverse research, scholarship and creative activity at the heart of UNL’s research enterprise. A companion website includes more photos, videos and additional resources.

2015 Annual Campus Security And Fire Safety Report, University Of Nebraska-Lincoln, University Police, University Of Nebraska-Lincoln

University of Nebraska-Lincoln, University Police

2015 Annual Campus Security and Fire Safety Report, University of Nebraska-Lincoln

Safety and security information for the University of Nebraska-Lincoln, including crime and fire statistics for the 2014 calendar year, and the information required by the Drug-Free Schools and Communities Act of 1989. All data are submitted to the United States Department of Education according to law.

Prevalence Of Escherichia Coli O157:H7 And Salmonella In Camels, Cattle, Goats, And Sheep Harvested For Meat In Riyadh, Joseph M. Bosilevac, Mustafa A. Gassem, Ibraheem A. Al Sheddy, Salah A. Almaiman, Ibrahim S. Al-Mohizea, Abdullah Alowaimer, Mohammad Koohmaraie

Roman L. Hruska U.S. Meat Animal Research Center: Reports

Escherichia coli O157:H7 and Salmonella are significant foodborne pathogens that can be found in the feces and on the hides of meat animals. When hides are removed during the harvest process, the carcass and subsequent meat products can become contaminated. Camels, cattle, sheep, and goats are harvested for meat in Riyadh, Saudi Arabia. The prevalence of E. coli O157:H7 and Salmonella are unknown in these animals, and it is assumed that if the animals carry the pathogens in their feces or on their hides, meat products are likely to become contaminated. To this end, a minimum of 206 samples …

Efficacy Of Antimicrobial Compounds On Surface Decontamination Of Seven Shiga Toxin–Producing Escherichia Coli And Salmonella Inoculated Onto Fresh Beef, Norasak Kalchayanand, Terrance M. Arthur, Joseph M. Bosilevac, John W. Schmidt, Rong Wang, Steven Shackelford, Tommy L. Wheeler

Roman L. Hruska U.S. Meat Animal Research Center: Reports

Several antimicrobial compounds have been used in commercial meat processing plants for decontamination of pathogens on beef carcasses, but there are many commercially available, novel antimicrobial compounds that may be more effective and suitable for use in beef processing pathogen-reduction programs. Sixty-four prerigor beef flanks (cutaneous trunci) were used in a study to determine whether hypobromous acid, neutral acidified sodium chlorite, and two citric acid–based antimicrobial compounds effectively reduce seven Shiga toxin–producing Escherichia coli (STEC) serogroups and Salmonella on the surface of fresh beef. Two cocktail mixtures were inoculated onto prerigor beef flank surfaces. Cocktail mixture 1 was composed of …