title: Genomics approach to abscisic acid- and gibberellin-responsive genes in rice.
abstract: We used an 8987-EST collection to construct a cDNA microarray system with various genomics information (full-length cDNA, expression profile, high accuracy genome sequence, phenotype, genetic map, and physical map) in rice. This array was used as a probe to hybridize target RNAs prepared from normally grown callus of rice and from callus treated for 6 hr or 3 days with the hormones abscisic acid (ABA) or gibberellin (GA). We identified 509 clones, including many clones that had never been annotated as ABA-or GA-responsive. These genes included not only ABA- or GA-responsive genes but also genes responsive to other physiological conditions such as pathogen infection, heat shock, and metal ion stress. Comparison of ABA- and GA-responsive genes revealed antagonistic regulation for these genes by both hormones except for one defense-related gene, thionin. The gene for thionin was up-regulated by both hormone treatments for 3 days. The upstream regions of all the genes that were regulated by both hormones had cis-elements for ABA and GA response. We performed a clustering analysis of genes regulated by both hormones and various expression profiles that showed three notable clusters (seed tissues, low temperature and sugar starvation, and thionin-gene related). A comparison of the cis-elements for hormone response genes between rice and Arabidopsis thaliana, we identified cis-elements for dehydration-stress response or for expression of amylase gene as Arabidopsis gene-specific or rice gene-specific, respectively.
authors.affiliation: Department of Molecular Genetics, National Institute of Agrobiological Sciences, 2-1-2 Kannon-dai, Tsukuba, Ibaraki 305-8602, Japan.
authors.forename: Junshi
authors.initials: J
authors.lastname: Yazaki
authors.forename: Naoki
authors.initials: N
authors.lastname: Kishimoto
authors.forename: Yuko
authors.initials: Y
authors.lastname: Nagata
authors.forename: Masahiro
authors.initials: M
authors.lastname: Ishikawa
authors.forename: Fumiko
authors.initials: F
authors.lastname: Fujii
authors.forename: Akiko
authors.initials: A
authors.lastname: Hashimoto
authors.forename: Kanako
authors.initials: K
authors.lastname: Shimbo
authors.forename: Zenpei
authors.initials: Z
authors.lastname: Shimatani
authors.forename: Keiichi
authors.initials: K
authors.lastname: Kojima
authors.forename: Kouji
authors.initials: K
authors.lastname: Suzuki
authors.forename: Makoto
authors.initials: M
authors.lastname: Yamamoto
authors.forename: Sachiko
authors.initials: S
authors.lastname: Honda
authors.forename: Ayano
authors.initials: A
authors.lastname: Endo
authors.forename: Yumiko
authors.initials: Y
authors.lastname: Yoshida
authors.forename: Yuki
authors.initials: Y
authors.lastname: Sato
authors.forename: Keiko
authors.initials: K
authors.lastname: Takeuchi
authors.forename: Kazuko
authors.initials: K
authors.lastname: Toyoshima
authors.forename: Chikako
authors.initials: C
authors.lastname: Miyamoto
authors.forename: Jianzhong
authors.initials: J
authors.lastname: Wu
authors.forename: Takuji
authors.initials: T
authors.lastname: Sasaki
authors.forename: Katsumi
authors.initials: K
authors.lastname: Sakata
authors.forename: Kimiko
authors.initials: K
authors.lastname: Yamamoto
authors.forename: Koh
authors.initials: K
authors.lastname: Iba
authors.forename: Takahiro
authors.initials: T
authors.lastname: Oda
authors.forename: Yasuhiro
authors.initials: Y
authors.lastname: Otomo
authors.forename: Kazuo
authors.initials: K
authors.lastname: Murakami
authors.forename: Kenichi
authors.initials: K
authors.lastname: Matsubara
authors.forename: Jun
authors.initials: J
authors.lastname: Kawai
authors.forename: Piero
authors.initials: P
authors.lastname: Carninci
authors.forename: Yoshihide
authors.initials: Y
authors.lastname: Hayashizaki
authors.forename: Shoshi
authors.initials: S
authors.lastname: Kikuchi
mesh_terms: D000040:Abscisic Acid / Q000494:pharmacology*; D002478:Cells, Cultured; D020869:Gene Expression Profiling; D018506:Gene Expression Regulation, Plant / Q000187:drug effects* / Q000235:genetics; D017343:Genes, Plant; D005875:Gibberellins / Q000494:pharmacology*; D020411:Oligonucleotide Array Sequence Analysis; D012275:Oryza / Q000187:drug effects / Q000235:genetics*; D010937:Plant Growth Regulators / Q000494:pharmacology*; D020218:Response Elements / Q000235:genetics; D014157:Transcription Factors / Q000235:genetics
chemical_list: D005875:Gibberellins; D010937:Plant Growth Regulators; D014157:Transcription Factors; D000040:Abscisic Acid