Abstract
Taking advantage of the complete genome sequence of Oryza sativa ssp. japonica and current high-throughput sequencing technologies, our project has been launched with the aim of revealing the history of wild rice genomes and establishing their molecular resources for future wild rice genomics. We report the effort of two wild AA genome species (O. rufipogon annual and perennial and O. longistaminata) analyses. We employed a high-throughput sequencing technology by illumina GAIIx, mapping and/or de novo assembly strategies for reconstructing of those genomes. As the first step, low-quality reads were excluded with a custom quality filter and the 4.997-8.177 million high-quality reads were used for mapping analyses by BWA programs in DDBJ pipeline. As for AA genomes, mapping method was effective and reconstructed ~85% of total genome in the O.fufipogons. While O.longistaminata, the mapping analysis reconstructed 63-67% of total genome. From these results, we will decode the inscribed history of closely related AA genomes and discuss the evolutionary origin and relationship of extant cultivars.
