57 Works

Data from: Accurate genomic predictions for chronic wasting disease in U.S. white-tailed deer

Christopher M. Seabury, David L. Oldeschulte, Eric K. Bhattarai, Dhruti Legare, Pamela J. Ferro, Richard P. Metz, Charles D. Johnson, Mitchell A. Lockwood & Tracy A. Nichols
The geographic expansion of chronic wasting disease (CWD) in U.S. white-tailed deer (Odocoileus virginianus) has been largely unabated by best management practices, diagnostic surveillance, and depopulation of positive herds. Using a custom Affymetrix Axiom® single nucleotide polymorphism (SNP) array, we demonstrate that both differential susceptibility to CWD, and natural variation in disease progression, are moderately to highly heritable ( among farmed U.S. white-tailed deer, and that loci other than PRNP are involved. Genome-wide association analyses...

Detoxification-related gene expression accompanies anhydrobiosis in the foliar nematode (Aphelenchoides fragariae)

Zhen Fu, Paula Agudelo & Christina Wells
The foliar nematode (Aphelenchoides fragariae) is a quarantined pest that infects a broad range of herbaceous and woody plants. Previous work has demonstrated its remarkable ability to survive rapid and extreme desiccation, although the specific mechanisms underlying its anhydrobiotic response have not been characterized. We used RNA sequencing and de novo transcriptome assembly to compare patterns of gene expression between hydrated and 24-hr desiccated nematodes. Two thousand eighty-three and 953 genes were significantly up- and...

SARS-CoV-2 transmission and control in a hospital setting: an individual-based modelling study

Qimin Huang, Anirban Mondal, Xiaobing Jiang, Mary Ann Horn, Fei Fan, Peng Fu, Xuan Wang, Hongyang Zhao, Martial Ndeffo Mbah & David Gurarie
Background: Development of strategies for mitigating the severity of COVID-19 is now a top public health priority. We sought to assess strategies for mitigating the COVID-19 outbreak in a hospital setting via the use of non-pharmaceutical interventions. Methods: We developed an individual-based model for COVID-19 transmission in a hospital setting. We calibrated the model using data of a COVID-19 outbreak in a hospital unit in Wuhan. The calibrated model was used to simulate different intervention...

Under the radar: genetic assessment of Rio Grande Shiner (Notropis jemezanus) and Speckled Chub (Macrhybopsis aestivalis), two Rio Grande basin endemic cyprinids that have experienced recent range contractions

Megan Osborne, David Portnoy, Andrew Fields, Kevin Conway, Megan Bean & Christopher Hoagstrom
The Rio Grande drainage of the southwestern United States and Mexico has undergone intense anthropogenic alteration by water diversions, extraction and associated habitat changes. These alterations have disproportionately impacted the pelagic broadcast spawning guild of minnows (pelagophils). Several Rio Grande endemic pelagophils, including the co-occurring Rio Grande Shiner (Notropis jemezanus) and Speckled Chub (Macrhybopsis aestivalis), have experienced dramatic recent range-wide declines yet have slipped under the radar of conservation efforts. The status of N. jemezanus...

Research Intelligence and the VIVO Platform: A Case Study from Texas A&M University and a Proposal for the VIVO Community

Bruce E. Herbert, Dong Joon Lee & Ethel Mejia

Religion in Quarantine

Heidi Campbell

Emergent social cohesion for coping with community disruptions in disasters

Chao Fan, Yucheng Jiang & Ali Mostafavi
Social cohesion is an important determinant of community well-being, especially in times of distress such as disasters. This study investigates the phenomena of emergent social cohesion, which is characterized by abrupt, temporary, and extensive social ties with the goal of sharing and receiving information regarding a particular event influencing a community. In the context of disasters, emergent social cohesion, enabled by social media usage, could play a significant role in improving the ability of communities...

Major inconsistencies of inferred population genetic structure estimated in a large set of domestic horse breeds using microsatellites

Stephan Funk, Jose Luis Vega-Pla, Cristina Luis, Gus Cothran & Rytis Juras
STRUCTURE remains the most applied tool aimed at recovering the true, but unknown, population structure from observed microsatellite data or other genetic markers. About 30% of STRUCTURE-based studies could not be reproduced (Gilbert et al., 2012). Here we use a large set of data from 2323 horses from 93 domestic breeds plus the Przewalski horse, typed at 15 microsatellite markers, to evaluate how program settings, in particular the so far insufficiently evaluated number of replicates,...

Maps of northern peatland extent, depth, carbon storage and nitrogen storage

Gustaf Hugelius, Julie Loisel, Sarah Chadburn, Robert B. Jackson, Miriam Jones, Glen MacDonald, Maija Marushchak, David Olefeldt, Maara Packalen, Matthias B. Siewert, Claire Treat, Merritt Turestsky, Carolina Voigt & Zicheng Yu
This dataset is grids of peatland extent, peat depth, peatland organic carbon storage, peatland total nitrogen storage and approximate extent of ombrotrophic/minerotrophic peatlands. The grids are geotiff files in 10 km pixel resolution projected in the World Azimuthal Equidistant projection. Note that the peat depth grid shows potential peat depth everywhere,also where there is no peatland cover. For files on peatland organic carbon, total nitrogen extent and extent of ombrotrophic/minerotrophic peatlands, there are separate files...

Data from: The upper thermal tolerance for a Texas population of the hairy maggot blow fly Chrysomya rufifacies Macquart (Diptera: Calliphoridae)

Travis Rusch, Ashleigh Faris, Lauren Beebe, Jeffery Tomberlin & Aaron Tarone
The hairy maggot blow fly (Chrysomya rufifacies: Macquart) is an invasive necrophagous fly found throughout the continental United States. Chrysomya rufifacies is of medical/veterinary, forensic, and ecological importance due to its ability to cause myiasis, colonize human remains, and displace native Diptera. However, little is known about their upper thermal tolerance, which could be used to better predict their invasion potential. We investigated the upper thermal tolerance of C. rufifacies exposed to different temperatures (20...

Data from: Testing models of reciprocal relations between social influence and integration in STEM across the college years

Paul Hernandez, V. Bede Agocha, Lauren Carney, Mica Estrada, Sharon Lee, David Loomis, Michelle Williams & Crystal Park
The present study tests predictions from the Tripartite Integration Model of Social Influences (TIMSI) concerning processes linking social interactions to social integration into science, technology, engineering, and mathematics (STEM) communities and careers. Students from historically overrepresented groups in STEM were followed from their senior year of high school through their senior year in college. Based on TIMSI, we hypothesized that interactions with social influence agents (operationalized as mentor network diversity, faculty mentor support, and research...

Microsatellite genotypes

Lauren Chan, Charlie Painter, Michael Hill, Toby Hibbitts, Daniel Leavitt, Wade Ryberg, Danielle Walkup & Lee Fitzgerald
Phylogeographic divergence and population genetic diversity within species reflect the impacts of habitat connectivity, demographics, and landscape level processes in both the recent and distant past. Characterizing patterns of differentiation across the geographic range of a species provides insight on the roles of organismal and environmental traits, on evolutionary divergence, and future population persistence. This is particularly true of habitat specialists where habitat availability and resource dependence may result in pronounced genetic structure as well...

QTL × environment interactions underlie adaptive divergence in switchgrass across a large latitudinal gradient

David Lowry, John Lovell, Li Zhang, Jason Bonnette, Philip Fay, Robert Mitchell, John Lloyd-Reilley, Arvid Boe, Yanqi Wu, Francis Rouquette, Richard Wynia, Xiaoyu Weng, Kathrine Behrman, Adam Healey, Kerrie Barry, Anna Lipzen, Diane Bauer, Aditi Sharma, Jerry Jenkins, Jeremy Schmutz, Felix B. Fritschi & Thomas E. Juenger
Local adaptation is the process by which natural selection drives adaptive phenotypic divergence across environmental gradients. Theory suggests that local adaptation results from genetic trade-offs at individual genetic loci, where adaptation to one set of environmental conditions results in a cost to fitness in alternative environments. However, the degree to which there are costs associated with local adaptation is poorly understood because most of these experiments rely on two-site reciprocal transplant experiments. Here, we quantify...

Dityrosine formation via reactive oxygen consumption yields increasingly recalcitrant humic-like fluorescent organic matter in the ocean

Ryan Paerl, Iliana Claudio, Michael Shields, Thomas Bianchi & Christopher Osburn
Marine dissolved organic matter (DOM) is a massive elemental pool on Earth and is thought to consist of a chemically complex mixture of molecules. Part of marine DOM is fluorescent (FDOM) and includes humic-like compounds. The chemical composition of, and biochemical pathways that yield, autochthonous humic-like FDOM in the ocean is largely unknown. Inspired by medical and biochemical research detailing the formation of colored and fluorescent dityrosine via peroxidase mediated reactions, we used fluorometry and...

Divergent neurogenomic responses shape social learning of both personality and mate preference

Pablo Delclos, Santiago Forero & Gil Rosenthal
Behavior plays a fundamental role in shaping the origin and fate of species. Mating decisions can act to promote or restrict gene flow, as can personality traits that influence dispersal and niche use. Mate choice and personality are often both learned and therefore influenced by an individual’s social environment throughout development. Likewise, the molecular pathways that shape these behaviors may also be co-expressed. In this study on swordtail fish (Xiphophorus birchmanni), we show that female...

Data from: Archaeological Central American maize genomes suggest ancient gene flow from South America

Logan Kistler, Heather B. Thakar, Amber M. VanDerwarker, Alejandra Domic, Anders Bergström, Richard J. George, Thomas K. Harper, Robin G. Allaby, Kenneth Hirth & Douglas J. Kennett
Maize (Zea mays ssp. mays) domestication began in southwestern Mexico ~9,000 calendar years before present (cal. BP) and humans dispersed this important grain to South America by at least 7000 cal. BP as a partial domesticate. South America served as a secondary improvement center where the domestication syndrome became fixed and new lineages emerged in parallel with similar processes in Mesoamerica. Later, Indigenous cultivators carried a second major wave of maize southward from Mesoamerica, but...

Protective effect of brain-derived neurotrophic factor and neurotrophin-3 overexpression by adipose-derived stem cells combined with silk fibroin/chitosan scaffold in spinal cord injury

Wen-Chen Ji, Meng Li, Wan-Ting Jiang, Xing Ma & Jia Li
Objectives: Spinal cord injury (SCI) is a most debilitating traumatic injury, and cytotherapy is a promising alternative treatment strategy. Here we investigated the effect and mechanism of adipose-derived stem/stromal cells (ASCs) with overexpressing brain-derived neurotrophic factor (BDNF) and neurotrophin-3 (NT3) (BDNF-NT3) in combination with silk fibroin/chitosan scaffold (SFCS) in SCI. Methods: Female Sprague-Dawley rats were used as an SCI model. SFCS,SFCS and ASCs, or ASCs overexpressing NT3, BDNF, and BDNF-NT3 were implanted into SCI rats....

Proscillaridin A slows the prostate cancer progression through triggering the activation of endoplasmic reticulum stress

Fan Wang, Lin Liu, Yu Tong, Linfeng Li, Yanfeng Liu & Wei-Qiang Gao
Prostate cancer (PCa) is the second commonly diagnosed malignancy in men over the world. Although androgen deprivation therapy for advanced PCa patients has significantly improved their survival, the majority of these patients eventually develop castration-resistant prostate cancer (CRPC). Proscillaridin A (Pro A), a cardiac glycoside that is clinically used to treat various heart failure diseases, has been reported to have anticancer activity in several cancers. However, whether Pro A exerts an inhibitory effect on PCa...

Data From: TERRA-REF, An open reference data set from high resolution genomics, phenomics, and imaging sensors

David LeBauer, Burnette Maxwell, Jeffrey Demieville, Noah Fahlgren, Andrew French, Roman Garnett, Zhenbin Hu, Kimberly Huynh, Rob Kooper, Zongyang Li, Maitiniyazi Maimaitijiang, Jerome Mao, Todd Mockler, Geoffrey Morris, Maria Newcomb, Michael Ottman, Philip Ozersky, Sidike Paheding, Duke Pauli, Robert Pless, Wei Qin, Kristina Riemer, Gareth Rohde, William Rooney, Vasit Sagan … & Charles Zender
The ARPA-E funded TERRA-REF project is generating open-access reference datasets for the study of plant sensing, genomics, and phenomics. Sensor data were generated by a field scanner sensing platform that captures color, thermal, hyperspectral, and active flourescence imagery as well as three dimensional structure and associated environmental measurements. This dataset is provided alongside data collected using traditional field methods in order to support calibration and validation of algorithms used to extract plot level phenotypes from...

Data from: Floral bagging differentially affects handling behaviors and single-visit pollen deposition by honey bees and native bees

Jacob Cecala, Pierre Lau & Joan Leong
Measurements of pollinator performance are crucial to pollination studies, enabling researchers to quantify the relative value of different pollinator species to plant reproduction. One of the most widely employed measures of pollinator performance is single-visit pollen deposition, the number of conspecific pollen grains deposited to a stigma after one pollinator visit. To ensure a pollen-free stigma, experimenters must first bag flowers before exposing them to a pollinator. Bagging flowers, however, may unintentionally manipulate floral characteristics...

The Distanced Church: Reflections on Doing Church Online - mobile version

Mobile version. This eBook experiment creates an accessible international dialogue between church leaders, theologians, and media scholars. The Distanced Church is a collection of 30 essays exploring the challenges and opportunities created by the current global COVID-19 pandemic for religious groups, and churches having to move from offline to online gatherings. This collection was put together in just 3 week to enable it to be distributed to religious organizations and researchers seeking to navigate and...

Data from: Risky roots and careful herbivores: Sustained herbivory by a root-feeding herbivore attenuates indirect plant defences

John Grunseich, Morgan Thompson, Allison Hay, Zachary Gorman, Michael Kolomiets, Micky Eubanks & Anjel Helms
Abstract Aboveground plant tissues produce characteristic blends of volatile compounds in response to insect herbivory. These herbivore-induced plant volatiles (HIPVs) function in plant defence and mediate foraging decisions by herbivores and their natural enemies. The ecological roles of HIPVs as foraging cues for different trophic levels highlight an important conflict for herbivores that need to locate suitable host plants while avoiding competition and predation. Plant roots also emit HIPVs following herbivory, but our understanding of...


Joel D. Kitchens, Kevin M. O'Sullivan & Tina Budzise-Weaver

CAREER: 4.5D Printing of Nickel Titanium Shape Memory Alloys

Alaa Elwany

Sensitive SERS Characterization and Analysis of Chlorpyrifos and Aldicarb Residues in Animal Feed using Gold Nanoparticles

Kyung-Min Lee, Danielle Yarbrough, Mena Kozman, Timothy Herrman, Jinhyuk Park, Rui Wang & Dmitry Kurouski

Registration Year

  • 2020

Resource Types

  • Dataset
  • Text
  • Output Management Plan


  • Texas A&M University
  • Zhejiang University
  • Shanghai Jiao Tong University
  • Huazhong University of Science and Technology
  • Capital Medical University
  • Shanghai Institute of Technology
  • The University of Texas at Austin
  • Fudan University Shanghai Cancer Center
  • Sichuan University
  • First Affiliated Hospital of Guangzhou University of Chinese Medicine