Polymorphism identification and improved genome annotation of Brassica rapa through Deep RNA sequencing.

ABSTRACT: The mapping and functional analysis of quantitative traits in Brassica rapa can be greatly improved with the availability of physically positioned, gene-based genetic markers and accurate genome annotation. In this study, deep transcriptome RNA sequencing (RNA-Seq) of Brassica rapa was undertaken with two objectives: SNP detection and improved transcriptome annotation. We performed SNP detection on two varieties that are parents of a mapping population to aid in development of a marker system for this population and subsequent development of high-resolution genetic map. An improved Brassica rapa transcriptome was constructed to detect novel transcripts and to improve the current genome annotation. This is useful for accurate mRNA abundance and detection of expression QTL (eQTLs) in mapping

SUBMITTER: Devisetty UK 

PROVIDER: S-EPMC4232532 | biostudies-literature | 2014 Aug

REPOSITORIES: biostudies-literature