title: Functional genomics of tomato in a post-genome-sequencing phase.
abstract: Completion of tomato genome sequencing project has broad impacts on genetic and genomic studies of tomato and Solanaceae plants. The reference genome sequence derived from Solanum lycopersicum cv 'Heinz 1706' serves as the firm basis for sequencing-based approaches to tomato genomics. In this article, we first present a brief summary of the genome sequencing project and a summary of the reference genome sequence. We then focus on recent progress in transcriptome sequencing and small RNA sequencing and show how the reference genome sequence makes these analyses more comprehensive than before. We discuss the potential of in-depth analysis that is based on DNA methylome sequencing and transcription start-site detection. Finally, we describe the current status of efforts to resequence S. lycopersicum cultivars to demonstrate how resequencing can allow the use of intraspecific genomic diversity for detailed phenotyping and breeding.
authors: Graduate School of Life and Environmental Sciences, Osaka Prefecture University , 1-1 Gakuen, Naka, Sakai, Osaka 599-8531, Japan ; Kazusa DNA Research Institute , 2-6-7 Kazusa-Kamatari, Kisarazu, Chiba 292-0818, Japan.
authors: Koh
authors: K
authors: Aoki
authors: Yoshiyuki
authors: Y
authors: Ogata
authors: Kaori
authors: K
authors: Igarashi
authors: Kentaro
authors: K
authors: Yano
authors: Hideki
authors: H
authors: Nagasaki
authors: Eli
authors: E
authors: Kaminuma
authors: Atsushi
authors: A
authors: Toyoda
keywords: comparative genomics; genome; small RNA; tomato; transcriptome
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