Data for genetic characterization and curation of diploid a-genome wheat species

Diploid A-genome relatives of wheat comprises T. urartu, T. monococcum
subsp. monococcum (domesticated einkorn) and T. monococcum subsp.
aegilopoides (wild einkorn). About 930 accessions of A-genome diploid
wheat species preserved in the gene bank of the Wheat Genetics Resource
Center (WGRC) at Kansas State University were genotyped using
genotyping-by-sequencing (GBS). We constructed four pooled GBS libraries
(384- and 288-plex) using restriction enzymes (Pst1-Msp1) combinations and
the libraries were sequenced on the Illumina platform. The sequence data
was processed using Tassel 5 GBS v2 pipeline and identified thousands of
single nucleotide polymorphisms (SNPs) for downstream genetic and genomic
dissections of the tested population. We have used T. urartu
pseudomolecule (Tu2.0) as a reference genome to detect the genetic
markers. Four fastq files with raw sequence reads information can be
obtained at the National Center for Biotechnology Information (NCBI) SRA
database with the BioProject accession PRJNA744683
(https://www.ncbi.nlm.nih.gov/sra/PRJNA744683). Provided key file has
information for demultiplexing including flowcell, lane number, barcodes
and sample names to replicate the analysis. This experiment led us to
curate the gene bank through identification of genetically duplicated
accessions, miss-classified accessions and miss-classified non-diploid
accessions. We were able to observe the unique genetic and evolutionary
relationships among the diploid A-genome wheat species along with the
unique population structures per species and sub-species.