Poster: Genomic & proteomic resources

Abs # 878: Collection, mapping and annotation of rice full-length cDNA clones

Presenter:	Kikuchi, Shoshi , skikuchi@nias.affrc.go.jp
Authors	Kikuchi, Shoshi  (A)   Satoh, Kouji  (A)   Yamada, Hitomi  (A)   Ooka, Hisako  (A)   Yazaki, Junshi  (A)   Doi, Koji  (A)   Hotta, Isamu  (A)   Suzuki, Kohji  (B)   Yamamoto, Makoto  (B)   Kawai, Jun  (C) (D)  Carninci, Piero  (D)   Hayashizaki, Yoshihide  (C) (D)  Otomo, Yasuhiro  (E)   Murakami, Kazuo  (E)   Matsubara, Kennichi  (E)
Affiliations:	(A): National Institute of Agrobiological Sciences (B): Hitachi Software Engineering (C): Riken Genome Sciences Center (D): RIKEN Wako Main Campus (E): Foundation of Advancement of International Science
Web Site:	http://cdna01.dna.affrc.go.jp/cDNA/

Three Japanese institutes, the National Institute of Agrobiological Sciences (NIAS), the Foundation for Advancement of International Science (FAIS), and the Institute of Physical and Chemical Research (RIKEN)have been collaborating with the Bio-oriented Technology Research Advancement Institute (BRAIN) to compile a complete set of full-length cDNAs from japonica rice. In the first phase of collection, 32,127 clones were completely sequenced and they correspond to about 20K Transcription Units (TU) on the rice genomes (Ref 1 and KOME WEB site). In the second phase of collection, 180K clones were randomly picked up and sequenced from both ends. Mapping results to the rice genome sequence revealed that phase I and II clones cover about 29K~38K TUs on rice genome. Comparison with the TIGR's predicted CDS (56K)showed 28K of the CDS were covered by the TUs determined by the full-length cDNA clones and about 10K TUs were found in the unpredicted region. Using the sequence information of phase I clones, 22K rice oligo microarray system has been commercialized since November 2003. References 1. Collection, Mapping, and Annotation of Over 28,000 cDNA Clones from japonica Rice Science (2003) 301, 376-379 Kikuchi et al. 2. KOME: Knowledge-based Oryza Molecular biological Encyclopedia http://cdna01.dna.affrc.go.jp/cDNA/