Monitoring the expression profiles of 7000 Arabidopsis genes under drought, cold and high-salinity stresses using a full-length cDNA microarray

Authors

  • Motoaki Seki,

    1. Plant Mutation Exploration Team, Plant Functional Genomics Research Group, RIKEN Genomic Sciences Center, 3-1-1 Koyadai, Tsukuba 305-0074, Japan,
    2. Laboratory of Plant Molecular Biology, RIKEN Tsukuba Institute, 3-1-1 Koyadai, Tsukuba 305-0074, Japan,
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    • The first two authors contributed equally to this work.

  • Mari Narusaka,

    1. Plant Mutation Exploration Team, Plant Functional Genomics Research Group, RIKEN Genomic Sciences Center, 3-1-1 Koyadai, Tsukuba 305-0074, Japan,
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    • The first two authors contributed equally to this work.

  • Junko Ishida,

    1. Plant Mutation Exploration Team, Plant Functional Genomics Research Group, RIKEN Genomic Sciences Center, 3-1-1 Koyadai, Tsukuba 305-0074, Japan,
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  • Tokihiko Nanjo,

    1. Laboratory of Plant Molecular Biology, RIKEN Tsukuba Institute, 3-1-1 Koyadai, Tsukuba 305-0074, Japan,
    2. Genesis Research Institute, Inc., 4-1-35 Noritake-Shinmachi Nishi-ku, Nagoya, Aichi 451-0051, Japan
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  • Miki Fujita,

    1. Plant Mutation Exploration Team, Plant Functional Genomics Research Group, RIKEN Genomic Sciences Center, 3-1-1 Koyadai, Tsukuba 305-0074, Japan,
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  • Youko Oono,

    1. Laboratory of Plant Molecular Biology, RIKEN Tsukuba Institute, 3-1-1 Koyadai, Tsukuba 305-0074, Japan,
    2. Master's Program in Biosystem Studies, University of Tsukuba, Tennodai, Tsukuba, Ibaraki, 305-8572, Japan,
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  • Asako Kamiya,

    1. Plant Mutation Exploration Team, Plant Functional Genomics Research Group, RIKEN Genomic Sciences Center, 3-1-1 Koyadai, Tsukuba 305-0074, Japan,
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  • Maiko Nakajima,

    1. Plant Mutation Exploration Team, Plant Functional Genomics Research Group, RIKEN Genomic Sciences Center, 3-1-1 Koyadai, Tsukuba 305-0074, Japan,
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  • Akiko Enju,

    1. Plant Mutation Exploration Team, Plant Functional Genomics Research Group, RIKEN Genomic Sciences Center, 3-1-1 Koyadai, Tsukuba 305-0074, Japan,
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  • Tetsuya Sakurai,

    1. Plant Mutation Exploration Team, Plant Functional Genomics Research Group, RIKEN Genomic Sciences Center, 3-1-1 Koyadai, Tsukuba 305-0074, Japan,
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  • Masakazu Satou,

    1. Plant Mutation Exploration Team, Plant Functional Genomics Research Group, RIKEN Genomic Sciences Center, 3-1-1 Koyadai, Tsukuba 305-0074, Japan,
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  • Kenji Akiyama,

    1. Plant Mutation Exploration Team, Plant Functional Genomics Research Group, RIKEN Genomic Sciences Center, 3-1-1 Koyadai, Tsukuba 305-0074, Japan,
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  • Teruaki Taji,

    1. Laboratory of Plant Molecular Biology, RIKEN Tsukuba Institute, 3-1-1 Koyadai, Tsukuba 305-0074, Japan,
    2. Master's Program in Biosystem Studies, University of Tsukuba, Tennodai, Tsukuba, Ibaraki, 305-8572, Japan,
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  • Kazuko Yamaguchi-Shinozaki,

    1. Biological Resources Division, Japan International Research Center for Agricultural Sciences, Ministry of Agriculture, Forestry, and Fisheries, 2-1 Ohwashi, Tsukuba, Ibaraki 305-0851, Japan,
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  • Piero Carninci,

    1. Genome Science Laboratory, RIKEN Tsukuba Institute, 3-1-1 Koyadai, Tsukuba 305-0074, Japan,
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  • Jun Kawai,

    1. Genome Science Laboratory, RIKEN Tsukuba Institute, 3-1-1 Koyadai, Tsukuba 305-0074, Japan,
    2. Genome Exploration Research Group, RIKEN Genomic Sciences Center, RIKEN Yokohama Institute, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama 230-0045, Japan,
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  • Yoshihide Hayashizaki,

    1. Genome Science Laboratory, RIKEN Tsukuba Institute, 3-1-1 Koyadai, Tsukuba 305-0074, Japan,
    2. Genome Exploration Research Group, RIKEN Genomic Sciences Center, RIKEN Yokohama Institute, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama 230-0045, Japan,
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  • Kazuo Shinozaki

    Corresponding author
    1. Plant Mutation Exploration Team, Plant Functional Genomics Research Group, RIKEN Genomic Sciences Center, 3-1-1 Koyadai, Tsukuba 305-0074, Japan,
    2. Laboratory of Plant Molecular Biology, RIKEN Tsukuba Institute, 3-1-1 Koyadai, Tsukuba 305-0074, Japan,
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For correspondence (fax +81 298 36 9060; e-mail sinozaki@rtc.riken.go.jp) .

Summary

Full-length cDNAs are essential for functional analysis of plant genes in the post-sequencing era of the Arabidopsis genome. Recently, cDNA microarray analysis has been developed for quantitative analysis of global and simultaneous analysis of expression profiles. We have prepared a full-length cDNA microarray containing ≈7000 independent, full-length cDNA groups to analyse the expression profiles of genes under drought, cold (low temperature) and high-salinity stress conditions over time. The transcripts of 53, 277 and 194 genes increased after cold, drought and high-salinity treatments, respectively, more than fivefold compared with the control genes. We also identified many highly drought-, cold- or high-salinity- stress-inducible genes. However, we observed strong relationships in the expression of these stress-responsive genes based on Venn diagram analysis, and found 22 stress-inducible genes that responded to all three stresses. Several gene groups showing different expression profiles were identified by analysis of their expression patterns during stress-responsive gene induction. The cold-inducible genes were classified into at least two gene groups from their expression profiles. DREB1A was included in a group whose expression peaked at 2 h after cold treatment. Among the drought, cold or high-salinity stress-inducible genes identified, we found 40 transcription factor genes (corresponding to ≈11% of all stress-inducible genes identified), suggesting that various transcriptional regulatory mechanisms function in the drought, cold or high-salinity stress signal transduction pathways.

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