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JXB Advance Access published online on December 12, 2003
Journal of Experimental Botany, doi:10.1093/jxb/erh007
© 2003 by Oxford University Press
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Received March 21, 2003; accepted July 22, 2003
© 2003 Society for Experimental Biology

CROSS-TALK IN PLANT SIGNAL TRANSDUCTION SPECIAL ISSUE ARTICLE

RIKEN Arabidopsis full-length (RAFL) cDNA and its applications for expression profiling under abiotic stress conditions

Motoaki Seki 1, Masakazu Satou 2, Tetsuya Sakurai 2, Kenji Akiyama 2, Kei Iida 2, Junko Ishida 2, Maiko Nakajima 2, Akiko Enju 2, Mari Narusaka 2, Miki Fujita 2, Youko Oono 3, Ayako Kamei 4, Kazuko Yamaguchi-Shinozaki 5, and Kazuo Shinozaki 1*

1 Plant Mutation Exploration Team, Plant Functional Genomics Research Group, RIKEN Genomic Sciences Center (GSC), RIKEN Yokohama Institute, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama 230-0045, Japan; Laboratory of Plant Molecular Biology, RIKEN Tsukuba Institute, 3-1-1 Koyadai, Tsukuba 305-0074, Japan
2 Plant Mutation Exploration Team, Plant Functional Genomics Research Group, RIKEN Genomic Sciences Center (GSC), RIKEN Yokohama Institute, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama 230-0045, Japan
3 Laboratory of Plant Molecular Biology, RIKEN Tsukuba Institute, 3-1-1 Koyadai, Tsukuba 305-0074, Japan; Master’s Program in Biosystem Studies, University of Tsukuba, Tennoudai, Tsukuba, Ibaraki, 305-0074, Japan
4 Laboratory of Plant Molecular Biology, RIKEN Tsukuba Institute, 3-1-1 Koyadai, Tsukuba 305-0074, Japan
5 Biological Resources Division, Japan International Research Center for Agricultural Sciences (JIRCAS),Ministry of Agriculture, Forestry, and Fisheries, 2-1 Ohwashi, Tsukuba 305-0074, Japan

* To whom correspondence should be addressed. E-mail: sinozaki{at}rtc.riken.go.jp.


  Abstract

Full-length cDNAs are essential for the correct annotation of genomic sequences and for the functional analysis of genes and their products. 155 144 RIKEN Arabidopsis full-length (RAFL) cDNA clones were isolated. The 3'-end expressed sequence tags (ESTs) of all 155 144 RAFL cDNAs were clustered into 14 668 non-redundant cDNA groups, about 60% of predicted genes. The sequence database of the RAFL cDNAs is useful for promoter analysis and the correct annotation of predicted transcription units and gene products. Recently, cDNA microarray analysis has been developed for quantitative analysis of global and simultaneous analysis of expression profiles. RAFL cDNA microarrays were prepared, containing independent full-length cDNA groups for analysing the expression profiles of genes under various stress- and hormone-treatment conditions and in various mutants and transgenic plants. In this review, recent progress on transcriptome analysis using the RAFL cDNA microarray is highlighted.

Key words: cDNA microarray, cold stress, drought stress, full-length cDNA, gene expression, high-salinity stress, RAFL cDNA.


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