This shows the sequence data of 208 accessions from 19 wild and 2 cultivated Oryza species. All accession has sequence information of illumination short reads (100-150 bp) of over x10 depth and is linked by the DRA registration number shown in the Table.
36 deep NGS genome sequences comprised of thirty O. rufipogon accessions, two O. longistaminata accessions (W1413 and W1508) and four cultivated Oryza strains (Nipponbare, Guangluai-4, Nongken-58, Kasalath) are listed. NGS data of these accessions were mapped on the Nipponbare genome (IRGSP version 1.0). The variant list contains datasets of genome-wide SNP information for each accession.
Deeper sequenced 17 accessions are Kasalath, Guangluai-4, Nipponbare(NIG stock), Nongken-58, W0106, W0120, W0180, W0593, W0630, W1230, W1236, W1413, W1508, W1715, W1921, W1943 and W1981. (See "Release 1.0 contents" for details.) The variant annotation list contains datasets of SNP information for each accession based on the latest reference Nipponbare genome, IRGSP version 1.0.
In the accession list, the first page provides information on the 446 O. rufipogon accessions including accession number, habitat/country of origin, ecotype, sequence coverage and deposited ID of NGS raw data. The second page provides information on eleven O. rufipogon, four O. sativa and two O. longistaminata accessions in the same categories. NGS raw data files for each genome can be retrieved through the public Databases DDBJ or EBI.
The variant list contains datasets of genome-wide SNP information for each accession. Whole genome information of each accession is provided as a VCF (variant call format) file or a tab delimited file.