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Genomes To Fields (G2F) Inbred Ear Imaging Data 2017

    A subset of ~30 inbreds were evaluated in 2014 and 2015 to develop an image based ear phenotyping tool. The data is stored in [CyVerse](http://datacommons.cyverse.org/browse/iplant/home/shared/commons_repo/curated/Edgar_Spalding_G2F_Inbred_Ear_Imaging_June_2017).

    Vaccination Against Lawsonia intracellularis Decreases Shedding of Salmonella enterica serovar Typhimurium in Co-Infected Pigs and Alters the Gut Microbiome

      *Salmonella enterica* is a leading cause of foodborne illness worldwide and pork can serve a source of infection. In this study, we investigated if vaccinating pigs against L*awsonia intracellularis*, a common pathogen of swine that has previously been shown to favor *Salmonella enterica* infection, confers protection against *Salmonella enterica serovar Typhimurium*. We investigated the underlying changes in the gut microbiome mediated by single *S. Typhiumurium* infection compared to co-infection with *L. intracellularis* as well as the effect of vaccination on the microbiome.

      Environmental Association Analyses Identify Candidates for Abiotic Stress Tolerance in Glycine soja, the Wild Progenitor of Cultivated Soybeans

        The present study explores an ex situ conservation collection, the USDA germplasm collection, genotyped at 32,416 SNPs, to identify population structure and test for associations with bioclimatic and biophysical variables in Glycine soja, the wild progenitor of Glycine max (soybean). Candidate loci were detected that putatively contribute to adaptation to abiotic stresses.

        SNP Genotyping Data from the Barley Experimental Population from "Two Genomic Regions Contribute Disproportionately to Geographic Differentiation in Wild Barley"

          The 318 sampled wild barley accensions, known as the Wild Barley Diversity Collection (WBDC), were genotyped using the Illumina Golden Gate Genotyping Assay with two Barley Oligo Pool assay chips (BOPA1 and BOPA2). The genotype calls were based on machine-scored data using the program ALCHEMY and the SNPs were annotated using the program SNPMeta. The BOPA1 & 2 files contains the output of the ALCHEMY program.

          Anoplophora glabripennis genome annotations v0.5.3

            This dataset presents the Anoplophora glabripennis gene set BCM_v_0.5.3. RNA-Seq data was used with additional protein homology data for a MAKER automated annotation of the Anoplophora glabripennis genome assembly 1.0.

            Lucilia cuprina genome annotations v0.5.3

              This dataset presents the Lucilia cuprina gene set BCM_v_0.5.3. RNA-Seq data was used with additional protein homology data for a MAKER automated annotation of the Lucilia cuprina genome assembly 1.0. This dataset is free for all use.

              Trichogramma pretiosum genome assembly v1.0

                The Baylor College of Medicine has sequenced and annotated the Trichogramma pretiosum genome as part of the i5k pilot project. This dataset presents the Trichogramma pretiosum genome v1.0. This assembly version is the pre-release version, prior to filtering and quality control by the National Center for Biotechnology Information's GenBank resource. Scaffold 109 was identified to be a complete Wolbachia genome, and was removed from the assembly on GenBank and relocated to a separate record (https://www.ncbi.nlm.nih.gov/nuccore/NZ_CM003641.1).

                Trichogramma pretiosum genome annotations v0.5.3

                  This dataset presents the Trichogramma pretiosum gene set BCM_v_0.5.3. RNA-Seq data was used with additional protein homology data for a MAKER automated annotation of the Trichogramma pretiosum genome assembly 1.0.