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First published online November 26, 2003; 10.1104/pp.103.025742

Plant Physiology 133:1755-1767 (2003)
© 2003 American Society of Plant Biologists

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ENVIRONMENTAL STRESS AND ADAPTATION

Monitoring Expression Profiles of Rice Genes under Cold, Drought, and High-Salinity Stresses and Abscisic Acid Application Using cDNA Microarray and RNA Gel-Blot Analyses1,[w]

M. Ashiq Rabbani2, Kyonoshin Maruyama, Hiroshi Abe, M. Ayub Khan2, Koji Katsura, Yusuke Ito, Kyoko Yoshiwara, Motoaki Seki, Kazuo Shinozaki and Kazuko Yamaguchi-Shinozaki*

Biological Resources Division, Japan International Research Center for Agricultural Sciences (JIRCAS), 1-1 Ohwashi, Tsukuba, Ibaraki 305-8686, Japan (M.A.R., K.M., H.A., M.A.K., K.K., Y.I., K.Y., K.Y.-S.); Laboratory of Plant Molecular Biology, RIKEN Tsukuba Institute, 3-1-1 Koyadai, Tsukuba, Ibaraki 305-0074, Japan (M.S., K.S.); and Plant Functional Genomics Group, RIKEN Genomic Sciences Center, 1-7-22 Suehiro-cho, Tsurumiku, Yokohama, Kanagawa 230-0045, Japan (M.S., K.S.)

To identify cold-, drought-, high-salinity-, and/or abscisic acid (ABA)-inducible genes in rice (Oryza sativa), we prepared a rice cDNA microarray including about 1,700 independent cDNAs derived from cDNA libraries prepared from drought-, cold-, and high-salinity-treated rice plants. We confirmed stress-inducible expression of the candidate genes selected by microarray analysis using RNA gel-blot analysis and finally identified a total of 73 genes as stress inducible including 58 novel unreported genes in rice. Among them, 36, 62, 57, and 43 genes were induced by cold, drought, high salinity, and ABA, respectively. We observed a strong association in the expression of stress-responsive genes and found 15 genes that responded to all four treatments. Venn diagram analysis revealed greater cross talk between signaling pathways for drought, ABA, and high-salinity stresses than between signaling pathways for cold and ABA stresses or cold and high-salinity stresses in rice. The rice genome database search enabled us not only to identify possible known cis-acting elements in the promoter regions of several stress-inducible genes but also to expect the existence of novel cis-acting elements involved in stress-responsive gene expression in rice stress-inducible promoters. Comparative analysis of Arabidopsis and rice showed that among the 73 stress-inducible rice genes, 51 already have been reported in Arabidopsis with similar function or gene name. Transcriptome analysis revealed novel stress-inducible genes, suggesting some differences between Arabidopsis and rice in their response to stress.

1 This work was supported in part by the Program for the Promotion of Basic Research Activities for Innovative Biosciences; in part by the Ministry of Agriculture, Forestry, and Fisheries, Japan (project grant); and by JIRCAS and Japan Society for the Promotion of Science (visiting research fellowship to M.A.R.).

[w] The online version of this article contains Web-only data.

2 Present address: National Agricultural Research Center, Park Road, Islamabad 45500, Pakistan.

Article, publication date, and citation information can be found at www.plantphysiol.org/cgi/doi/10.1104/pp.103.025742.

* Corresponding author; e-mail kazukoys{at}jircas.affrc.go.jp; fax 81-29-838-6643.

Received April 20, 2003; returned for revision June 9, 2003; accepted August 13, 2003.




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