Life Sciences Commons^™

Community Oncologists' Perceptions And Utilization Of Large-Panel Genomic Tumor Testing., Eric C Anderson, Alexandra C Hinton, Christine W Lary, Anny T H R Fenton, Andrey Antov, Emily A Edelman, Petra Helbig, Kate Reed, Susan Miesfeldt, Christian A Thomas, Michael J Hall, J Scott Roberts, Jens Rueter, Paul K J Han, Mcgi Working Group

Faculty Research 2021

PURPOSE: Large-panel genomic tumor testing (GTT) is an emerging technology with great promise but uncertain clinical value. Previous research has documented variability in academic oncologists' perceptions and use of GTT, but little is known about community oncologists' perceptions of GTT and how perceptions relate to clinicians' intentions to use GTT.

METHODS: Community oncology physicians (N = 58) participating in a statewide initiative aimed at improving access to large-panel GTT completed surveys assessing their confidence in using GTT, attitudes regarding the value of GTT, perceptions of barriers to GTT implementation, and future intentions to use GTTs. Descriptive and multivariable regression analyses …

Characterizing Long Covid: Deep Phenotype Of A Complex Condition, Rachel R. Deer, Madeline A. Rock, Nicole Vasilevsky, Leigh Carmody, Halie Rando, Alfred J. Anzalone, Marc D. Basson, Tellen D. Bennett, Timothy Bergquist, Eilis A. Boudreau, Carolyn T. Bramante, James Brian Byrd, Tiffany J. Callahan, Lauren E. Chan, Haitao Chu, Christopher G. Chute, Ben D. Coleman, Hannah E. Davis, Joel Gagnier, Casey S. Greene, Ramakanth Kavuluru

Institute for Biomedical Informatics Faculty Publications

BACKGROUND: Numerous publications describe the clinical manifestations of post-acute sequelae of SARS-CoV-2 (PASC or "long COVID"), but they are difficult to integrate because of heterogeneous methods and the lack of a standard for denoting the many phenotypic manifestations. Patient-led studies are of particular importance for understanding the natural history of COVID-19, but integration is hampered because they often use different terms to describe the same symptom or condition. This significant disparity in patient versus clinical characterization motivated the proposed ontological approach to specifying manifestations, which will improve capture and integration of future long COVID studies.

METHODS: The Human Phenotype Ontology …

Characterizing Long Covid: Deep Phenotype Of A Complex Condition., Rachel R Deer, Madeline A Rock, Nicole Vasilevsky, Leigh Carmody, Halie Rando, Alfred J Anzalone, Marc D Basson, Tellen D Bennett, Timothy Bergquist, Eilis A Boudreau, Carolyn T Bramante, James Brian Byrd, Tiffany J Callahan, Lauren E Chan, Haitao Chu, Christopher G Chute, Ben D Coleman, Hannah E Davis, Joel Gagnier, Casey S Greene, William B Hillegass, Ramakanth Kavuluru, Wesley D Kimble, Farrukh M Koraishy, Sebastian Köhler, Chen Liang, Feifan Liu, Hongfang Liu, Vithal Madhira, Charisse R Madlock-Brown, Nicolas Matentzoglu, Diego R Mazzotti, Julie A Mcmurry, Douglas S Mcnair, Richard A Moffitt, Teshamae S Monteith, Ann M Parker, Mallory A Perry, Emily Pfaff, Justin T Reese, Joel Saltz, Robert A Schuff, Anthony E Solomonides, Julian Solway, Heidi Spratt, Gary S Stein, Anupam A Sule, Umit Topaloglu, George D Vavougios, Liwei Wang, Melissa A Haendel, Peter N Robinson

Faculty Research 2021

BACKGROUND: Numerous publications describe the clinical manifestations of post-acute sequelae of SARS-CoV-2 (PASC or "long COVID"), but they are difficult to integrate because of heterogeneous methods and the lack of a standard for denoting the many phenotypic manifestations. Patient-led studies are of particular importance for understanding the natural history of COVID-19, but integration is hampered because they often use different terms to describe the same symptom or condition. This significant disparity in patient versus clinical characterization motivated the proposed ontological approach to specifying manifestations, which will improve capture and integration of future long COVID studies.

METHODS: The Human Phenotype Ontology …

The Aboveground And Belowground Growth Characteristics Of Juvenile Conifers In The Southwestern United States, N. L. Pirtel, R. M. Hubbard, J. B. Bradford, T. E. Kolb, M. E. Litvak, Scott Abella, S. L. Porter, Matthew Petrie

Life Sciences Faculty Research

Juvenile tree survival will play an important role in the persistence of coniferous forests and woodlands in the southwestern United States (SWUS). Vulnerability to climatic and environmental stress declines as trees grow, such that larger, more deeply rooted juveniles are less likely to experience mortality. It is unclear how juvenile conifers partition the aboveground and belowground components of early growth, if growth differs between species and ecosystem types, and what environmental factors influence juvenile carbon allocation above- or belowground. We developed a novel data set for four juvenile conifer groups (junipers, piñon pines, ponderosa pines, firs; 1121 juveniles sampled, 221 …

Binational Reflections On Pathways To Groundwater Security In The Mexico–United States Borderlands, Rosario Sanchez, José Agustin Breña-Naranjo, Alfonso Rivera, Randall T. Hanson, Antonio Hernández-Espriú, Rick J. Hogeboom, Anita Milman, Jude A. Benavides, Adrian Pedrozo-Acuña, Julio Cesar Soriano-Monzalvo

School of Earth, Environmental, & Marine Sciences Faculty Publications

Shared groundwater resources between Mexico and the United States are facing unprecedented stressors. We reflect on how to improve water security for groundwater systems in the border region. Our reflection begins with the state of groundwater knowledge, and the challenges groundwater resources face from a physical, societal and institutional perspective. We conclude that the extent of ongoing cooperation frameworks, joint and remaining research efforts, from which alternative strategies can emerge, still need to be developed. The way forward offers a variety of cooperation models as the future offers rather complex, shared and multidisciplinary water challenges to the Mexico–US borderlands.

Examination Of Athlete Triad Symptoms Among Endurance-Trained Male Athletes: A Field Study, Erin M. Moore, Clemens Drenowatz, David F. Stodden, Kelly Pritchett, Thaddus C. Brodick, Brittany T. Williams, Justin M. Goins, Toni Torres-Mcgehee Phd, Lat, Atc

Faculty Publications

Background: Studies examining the physiological consequences associated with deficits in energy availability (EA) for male athletes are sparse.

Purpose: To examine male athlete triad components; low energy availability (LEA) with or without an eating disorder risk (ED), reproductive hormone [testosterone (T)], and bone mineral density (BMD) in endurance-trained male athletes during different training periods.

Methods: A cross-sectional design with 14 participants (age: 26.4 ± 4.2 years; weight: 70.6 ± 6.4 kg; height: 179.5 ± 4.3 cm; BMI: 21.9 ± 1.8 kg/m2) were recruited from the local community. Two separate training weeks [low (LV) and high (HV) training volumes] were used …

Phylogenomics Of Alligator Lizards Elucidate Diversification Patterns Across The Mexican Transition Zone And Support The Recognition Of A New Genus, Christopher Blair, Robert W. Bryson Jr, Uri O. García-Vázquez, Adrián Nieto-Montes De Oca, David Lazcano, John E. Mccormack, John Klicka

Publications and Research

Genomic data continue to advance our understanding of species limits and biogeographic patterns. However, there is still no consensus regarding appropriate methods of phylogenomic analysis that make the best use of these heterogeneous data sets. In this study, we used thousands of ultraconserved element (UCE) loci from alligator lizards in the genus Gerrhonotus to compare and contrast species trees inferred using multiple contemporary methods and provide a time frame for biological diversification across the Mexican Transition Zone (MTZ). Concatenated maximum likelihood (ML) and Bayesian analyses provided highly congruent results, with differences limited to poorly supported nodes. Similar topologies were inferred …

Nutritive Quality Of Tropical Grasses Sown Under A Pine Plantation, D. Gutmanis, Antonio João Lourenço, V. B. G. Alcantara, Maria T. Colozza

IGC Proceedings (1977-2023)

A trial was conducted in Brazil to evaluate the nutritive quality of 6 tropical grasses: tanzania (Panicum maximum cv. Tanzania), green-panic (P. maximum var. Trichoglume), aruana (P. maximum cv. Aruana), brizanta (Brachiaria brizantha), humidicola (B. humidicola) and tifton-85 (Cynodon dactylon cv. Tifton 85), planted under two different densities of pines (Pinus elliottis): 200 and 400 stems/ha, as well as in full sunlight. The results showed a significant increase in protein content and a significant decrease in NDF and cellulose contents as tree density increased. Comparing the values obtained under shading conditions …

Production And Mineral Composition Of Tropical Grasses Sown Under A Pine Plantation, D. Gutmanis, V. B. G. Alcantara, Maria T. Colozza, Antonio João Lourenço

IGC Proceedings (1977-2023)

A trial was conducted in Brazil to evaluate the performance of 6 tropical grasses: tanzania (Panicum maximum cv. Tanzania), green-panic (P. maximum var. Trichoglume), aruana (P. maximum cv. Aruana), brizanta (Brachiaria brizantha), humidicola (B. humidicola) and tifton-85 (Cynodon dactylon cv. Tifton 85), planted under two different densities of pines (Pinus elliottis): 200 and 400 stems/ha, as well as in the full sunlight. The results showed that the dry matter yield decreased as shading increased. The grasses tanzania and brizanta were the most tolerant to shading. Although N concentration increased with …

Dry Matter Production And Nutritive Value Of Alfalfa (Medicago Sativa L.) And Orchardgrass (Dactylis Glomerata L.) Under Different Light Regimes, A. C. Varella, P. L. Peri, R. J. Lucas, D. J. Moot, D. L. Mcneil

IGC Proceedings (1977-2023)

Spring and summer alfalfa dry matter and nitrogen production rates were greater than orchardgrass in open pasture and under three shade levels. Ten years old Pinus radiata allowed 60% light transmissivity. The addition of artificial shade resulted in 45% and 25% transmissivity. Orchardgrass pastures were nitrogen deficient and water stressed. In contrast, alfalfa was not stressed and it was more light responsive than orchardgrass. Differences in nutritive value were relatively small between species and between light regimes. Sheep liveweight gain on alfalfa was greater than on orchardgrass. Orchardgrass demonstrated shade tolerance, but alfalfa was more productive even at 25% transmissivity. …

Different Methods Of Artificial Shade For Agro-Silvipastoral Research, A. C. Varella, D. J. Moot, R. J. Lucas, D. L. Mcneil, P. L. Peri, K. M. Pollock

IGC Proceedings (1977-2023)

Artificial shading sources are used to simulate silvipastoral light environments and study the effect of shade on pasture. Different sources of shade may not imitate normal forest light environment. An experiment was conducted to examine the light environment and effect on pasture yield components of two artificial shading materials. Alfalfa (Medicago sativa L.) pasture was submitted to three light regimes: full sunlight (100% transmissivity); black shade cloth (40%) and wooden slats (45%).

The pattern of light exposure for plants differed under slats and shade cloth, but light intensity and quality were similar. Alfalfa dry matter (DM) yield and leaf …

Recovery Of Altered Diabetic Myofibroblast Heterogeneity And Gene Expression Associated With Cd301b+ Macrophages, Maryellen R. Haas, Darlene V. Nguyen, Brett A. Shook

Biochemistry and Molecular Medicine Faculty Publications

No abstract provided.

Identification And Genetic Characterization Of Pseudomonas Syringae Pv. Syringae From Sweet Cherry In Turkey, Cansu Oksel, Farhat A. Avin, Mustafa Mirik, Fulya Baysal-Gurel

Agricultural and Environmental Sciences Faculty Research

Pseudomonas syringae pv. syringae (Pss), which causes bacterial canker, is the most polyphagous bacterium in the P. syringae complex due to its broad host range. This pathogen is considered the major bacterial disease in cherry orchards. In this study, several samples were collected from infected sweet cherry trees in different locations of the Marmara region in Turkey between 2016-2018. Sixty-three isolates were identified as Pss by pathogenicity, LOPAT, GATTa, and MALDI-TOF MS tests. Total genomic DNA was extracted to confirm identity, followed by PCR amplification of syrB and cfl genes. Out of 63 isolates, 12 were randomly selected for Repetitive …

Analysis Of Hendra Virus Fusion Protein N-Terminal Transmembrane Residues, Chelsea T. Barrett, Hadley E. Neal, Kearstin Edmonds, J. Lizbeth Reyes Zamora, Carole L. Moncman, Andreea Popa, Everett Clinton Smith, Stacy R. Webb, Rebecca Ellis Dutch

Molecular and Cellular Biochemistry Faculty Publications

Hendra virus (HeV) is a zoonotic enveloped member of the family Paramyoxviridae. To successfully infect a host cell, HeV utilizes two surface glycoproteins: the attachment (G) protein to bind, and the trimeric fusion (F) protein to merge the viral envelope with the membrane of the host cell. The transmembrane (TM) region of HeV F has been shown to have roles in F protein stability and the overall trimeric association of F. Previously, alanine scanning mutagenesis has been performed on the C-terminal end of the protein, revealing the importance of β-branched residues in this region. Additionally, residues S490 and Y498 have …

Food Science, Tech Program Offers Huskers Valuable Real-World Experience, Annie Albin

Nebraska Innovation Campus Materials

A program launched by a student experience is helping Huskers in food science and technology majors gain hands-on experience while making positive real-world impacts.

Offered through the University of Nebraska–Lincoln’s Department of Food Science and Technology, the Food Processing Center’s Student Rotation program allows undergraduates to participate in four lab experiences. Those labs — dairy plant, pilot plant, product development lab and sensory lab — were first completed by a student who just happened to take them through the four years of her collegiate career

Competition For Light In A Leucaena Leucocephala / Chloris Gayana Silvopastoral System, N. F. G. Rethman, J. P. Lindeque

IGC Proceedings (1977-2023)

The spatial variation in the vigour of Leucaena (Leucaena leucocephala cv. Cunningham) trees growing together with Rhodesgrass (Chloris gayana cv. Katambora) in an alley cropping system made it possible to assess the competitive effect for light. The height and especially lateral development of trees had a strong influence on light interception by the canopy, with radiation in the intercrop area being 49% lower where the trees were more vigorous. There was a corresponding (43%) decrease in grass production. These findings indicate that future studies should also include aspects such as espacement of trees, pruning of trees in the …

Optimizing Yield And Quality Of Orchardgrass Pasture In Temperate Silvipastoral Systems, P. L. Peri, R. J. Lucas, D. J. Moot, A. C. Varella, D. L. Mcneil

IGC Proceedings (1977-2023)

The objective of this study was to provide grazing management recommendations for a silvipastoral system by determining the effects of shade and nitrogen (N) on the pattern of dry matter accumulation and nutritive value of orchardgrass (Dactylis glomerata) in a subhumid temperate environment. Orchardgrass in open pasture (100% transmittance) and under 10 year old Pinus radiata tree shade (60% transmittance) at 200 stems/ha was used as the main plot and nitrogen (0 and 300 kg N/ha as synthetic urine) was the subplot factor. Dry matter (DM) production of orchardgrass in the first 60-day spring rotation was similar in …

Herbage Characteristics As Affected By The Canopies Of Dominant Trees In A Savanna Of Southern Mozambique, James P. Muir, A. Alage, Inacio C. Maposse

IGC Proceedings (1977-2023)

This study surveyed the species composition, forage yield and forage nitrogen concentration of the herbaceous layer 50, 100 and 200% of the canopy radius from the trunks of many-stemmed false thorn, knob thorn, scented thorn and marula trees in a southern Mozambican savanna. Tree species did not affect herbaceous DM yield or species diversity. Neither direction nor distance from the tree trunk affected DM or specific diversity. Crude protein percentages were 15% higher for legumes and 9% higher for grasses at 50% canopy than at 200% canopy. Grasses under the marulas, the only non-legume tree in the study, had 18% …

Selecting New Brachiaria For Brazilian Pastures, Cacilda B. Do Valle, Valéria P. B. Euclides, Manuel C. M. Macedo, José R. Valério, S. Calixto

IGC Proceedings (1977-2023)

Brazilian beef production relies heavily on cultivated pastures, of which about 80% are planted mainly to two Brachiaria cultivars. The narrowness of diversity associated with reproduction by apomixis of most plants in this genus prompted an intense search for new cultivars amongst recently collected and introduced ecotypes from Africa. This paper reports results for a three-year evaluation of 21 pre-selected ecotypes in two typical Cerrado ecosystems. Plots, replicated four times, were seeded in rows and cut every 6 weeks during the rainy season followed by a cut in the middle and one at the end of the dry season. Significant …

Access To Care, Reporting Behaviors, And Quality Of Athletic Training Service Interactions For Reserve Officers' Training Corps Cadets, Mary Catherine Avey, Amy F. Hand, Nancy A. Uriegas, Allison B. Smith, Zachary K. Winkelmann

Journal of Sports Medicine and Allied Health Sciences: Official Journal of the Ohio Athletic Trainers Association

Purpose: Reserve Officers’ Training Corps (ROTC) programs prepare student-civilians to become leaders through strenuous physical and leadership training. Unlike their student-athlete counterparts who have direct access to athletic training services, ROTC cadets may or may not have a healthcare provider available. The purpose of this study was to examine the access to care and reporting behaviors of ROTC cadets with a secondary aim exploring the quality of healthcare service interactions relative to patient-centered care.

Methods: An online survey assessed access to care using a self-report tool on the type of medical providers available to the ROTC cadets (n=132, age=20±3 …

A Comparison Of Treatment Options For Carpal Boss: A Critically Appraised Topic, Megan M. Collins, Matthew J. Rivera

Journal of Sports Medicine and Allied Health Sciences: Official Journal of the Ohio Athletic Trainers Association

Context: Carpal bossing is a bony growth or mass that typically occurs at the 2^nd or 3^rd carpometacarpal joint. Carpal bossing is often overlooked placing the patient at an increased risk for pain or injury, such as osteoarthritis or inflammatory joint disease if left untreated. Individuals such as combat sport athletes who experience repetitive trauma to this area are at a high risk to develop carpal bossing. The literature suggests conservative or surgical interventions to manage symptoms. The goal of this systematic review is to synthesize the current literature for clinical knowledge and intervention outcomes for carpal bossing. …

Utilizing Low-Intensity Blood Flow Restriction Training To Improve Aerobic Capacity In Physically Active And Injured Individuals: A Critically Appraised Topic, Melissa O. Miller, Kacee L. Hill, Jaclyn Arduini, Aric J. Warren

Journal of Sports Medicine and Allied Health Sciences: Official Journal of the Ohio Athletic Trainers Association

Purpose: To determine if, in physically active individuals, low-intensity Blood Flow Restriction (BFR) training is more effective than training without BFR at improving measures of aerobic capacity.

Methods: A database search was conducted for articles that matched inclusion criteria (minimum level 2 evidence, physically active participants, comparison of low-intensity BFR to no BFR training, comparison of pre-post testing with aerobic fitness or performance, training protocols >2 weeks, studies published after 2010) by two authors and assessed by one using the PEDro scale (a minimum of 5/10 was required) to ensure level 2 quality studies that were then analyzed.

Results: Four …

Concussion-Related Alterations In Neural Activity During Emotion Recognition: Case Studies Of Short-Term And Residual Effects, Joshua Ricker, Kylee Smith, Alexandra Schmidt, Andrea Cripps, Palguna Thalla, Howard C. Cromwell, Xin Wang

Journal of Sports Medicine and Allied Health Sciences: Official Journal of the Ohio Athletic Trainers Association

Concussions have recently become an area of concern among the general public, but a clear understanding of their total consequence is still being developed. Symptoms of concussions are wide-ranging, encapsulating a plethora of cognitive and emotional abilities that could be affected. Concussions transiently disrupt neural activation as well as behavioral responses across multiple categories. Skills pertaining to various aspects of emotions are often affected yet have rarely been studied after concussions. We present two case studies of collegiate athletes with a history of multiple concussions. This paper highlights the case of a collegiate athlete who had obtained two previous concussions …

Mindfulness Training's Effect Of Pain Outcomes In Musculoskeletal Pain: A Systematic Review, Elizabeth Cruze, Kenneth E. Games

Journal of Sports Medicine and Allied Health Sciences: Official Journal of the Ohio Athletic Trainers Association

Purpose: Athletic trainers frequently address and treat musculoskeletal pain (MSK). Complementary and alternative techniques for treating pain are becoming more widely accepted and utilized in clinical practice. Mindfulness based stress reduction (MBSR) is a meditation-based program that is designed to help patients learn to feel things in a non-judgmental way. Previous systematic reviews on mindfulness training have focused a range of conditions including IBS, fibromyalgia, and migraines. The purpose of this systematic review was to examine if the literature supports the use of MBSR as an intervention for MSK pain. Methods: We completed a systematic review utilizing PRISMA guidelines. Inclusion …

Differentiation Of Fetal Hematopoietic Stem Cells Requires Arid4b To Restrict Autocrine Kitlg/Kit-Src Signaling., In-Chi Young, Bogang Wu, Jaclyn Andricovich, Sung-Ting Chuang, Rong Li, Alexandros Tzatsos, Ray-Chang Wu, Mei-Yi Wu

Anatomy and Regenerative Biology Faculty Publications

No abstract provided.

Relationship Of Cultivated Grain Amaranth Species And Wild Relative Accessions, Ranjita Thapa, Matthew Edwards, Matthew W. Blair

Agricultural and Environmental Sciences Faculty Research

Amaranthus is a genus of C4 dicotyledonous herbaceous plants, and three New World species have been domesticated to produce grain crops with light colored seed which are classified as pseudo-cereals rich in protein and minerals. A core collection of grain amaranths and immediate precursor species has been established, representing the closest related species. The goal of this study was to evaluate the genetic diversity in that collection of cultivated and wild species, using competitive allele single nucleotide polymorphism markers. A secondary objective was to determine the relationships among the three cultivated species and non-domesticated Amaranthus, while a third objective was …

Soil Bacteria In Urban Community Gardens Have The Potential To Disseminate Antimicrobial Resistance Through Horizontal Gene Transfer, Abdullah Ibn Mafiz, Yingshu He, Wei Zhang, Yifan Zhang

Agricultural and Environmental Sciences Faculty Research

Fifteen soil and 45 vegetable samples from Detroit community gardens were analyzed for potential antimicrobial resistance contamination. Soil bacteria were isolated and tested by antimicrobial susceptibility profiling, horizontal gene transfer, and whole-genome sequencing. High-throughput 16S rRNA sequencing analysis was conducted on collected soil samples to determine the total bacterial composition. Of 226 bacterial isolates recovered, 54 were from soil and 172 from vegetables. A high minimal inhibitory concentration (MIC) was defined as the MIC greater than or equal to the resistance breakpoint of Escherichia coli for Gram-negative bacteria or Staphylococcus aureus for Gram-positive bacteria. The high MIC was observed in …

Biomarkers For Resistance To Porcine Circovirus 2 Associated Disease, Daniel Constantin Ciobanu, Lianna Rayne Walker, Taylor Benjamin Engle, Hiep Vu

Department of Animal Science: Faculty Publications

The present disclosure provides compositions and methods for increasing resistance to PCV2 infection in pigs. The increased resistance may be the result of siRNA or genetic modification through CRISPR or a vectored virus targeting SNPs that are resistant to PCV2 infection.

Diversity And Composition Of Plant Species In The Geita Gold Mining Catchment Area, Tanzania, Mariam G. Mgendi, Mkabwa Lawrence Manoko, William J.S. Mwegoha

Journal of Humanities and Social Sciences

A study on the diversity of plant species is of vital importance for the conservation of natural ecosystems that are increasingly being threatened by various anthropogenic activities. Greater diversity makes ecosystems healthier and resilient to stress, thus providing its services on which humans depend. This study aimed to assess the health of the ecosystem around the Geita Gold Mine (GGM) based on the diversity and composition of plant species. Two transects with a total of 14 sampling sites were established where the number of plant species were systematically recorded using nested quadrats. The diversity of species was determined using species …

Model Fitting And Analysis Of The Cost-Effectiveness Of Control Strategies In The Threatened Wildebeest-Lion Prey-Predator System In The Serengeti Ecosystem, Thadei D. Sagamiko

Journal of Humanities and Social Sciences

In this paper, a wildebeest-lion prey-predator model for the Serengeti ecosystem was adopted from a previous publication. The threats to the model system were poaching, retaliatory killings, and droughts. The proposed threat control strategies for these threats were anti-poaching patrol to mitigate poaching, construction of strong bomas to reduce retaliatory killings, and construction of dams to mitigate the impact of droughts. Data on the lion population density in the Serengeti ecosystem were used to fit the model by using the maximum likelihood method. The impact of different control strategies for a period of five years was analysed using the incremental …