This dataset includes forward and reverse raw sequencing reads for 2,309 broiler chicken gut, respiratory, and litter samples surveyed using 16S amplicon profiling.
This dataset from maize-GAMER is a new high-coverage and reproducible functional annotation of maize protein coding genes based on Gene Ontology (GO) term assignments that covers all genes in the B73 RefGen_V4 Zm00001d.2.
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 Lawsonia 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.
This dataset from maize-GAMER is a new high-coverage and reproducible functional annotation of maize (Zea mays) protein coding genes based on Gene Ontology (GO) term assignments that covers all genes in the B73 RefGen_v3 5b+ set. Data are compressed gzip (.gz) files.
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.
These are SNPs on two Illumina GoldenGate genotyping arrays and one 9k iSelect genotyping array.