Oryza rufipogon cultivar:Dongxiang Wild Rice Raw sequence reads

It is widely accepted that common wild rice (Oryza rufipogon Griff.) is the wild ancestor of cultivated rice (Oryza sativa L.). Compared to other studies which concentrate on rice origin, this study is to genetically elucidate the substantially phenotypic and physiological changes from O. rufipogon to O. sativa at the whole genome level. Instead of comparing two assembled genomes, this study directly compared the Dongxiang wild rice (DXWR) NGS reads with the nipponbare (O. sativa) complete genome without assembly of the DXWR genome. Based on the results from the comparative genomics analysis, structural variations (SVs) between DXWR and nipponbare were determined to locate deleted genes which could have been acquired by nipponbare during rice domestication from wild to cultivar.