Intrinsic mechanisms against environmental stress in plants by rewriting genome sequences

• Project/Area Number: 24580016
• Research Category: Grant-in-Aid for Scientific Research (C)
• Allocation Type: Multi-year Fund
• Section: 一般
• Research Field: Breeding science
• Research Institution: National Institute of Agrobiological Sciences
• Principal Investigator: HABU Yoshiki 独立行政法人農業生物資源研究所, ゲノム機能改変研究ユニット, 主任研究員 (80266915)
• Project Period (FY): 2012-04-01 – 2015-03-31
• Project Status: Completed (Fiscal Year 2014)
• Budget Amount: ¥5,330,000 (Direct Cost: ¥4,100,000、Indirect Cost: ¥1,230,000); Fiscal Year 2014: ¥1,690,000 (Direct Cost: ¥1,300,000、Indirect Cost: ¥390,000); Fiscal Year 2013: ¥1,690,000 (Direct Cost: ¥1,300,000、Indirect Cost: ¥390,000); Fiscal Year 2012: ¥1,950,000 (Direct Cost: ¥1,500,000、Indirect Cost: ¥450,000)
• Keywords: トランスポゾン / イネ / 環境ストレス / ゲノム改変 / メチル化 / エピゲノム

Outline of Final Research Achievements

Excision of DaiZ10, a hAT-type transposon, was detected in a hypomethylated rice line produced by knockdown of DDM1 gene that is required for maintenance of DNA methylation in the genome. Excision of DaiZ10 was observed in 1 week-old wild-type callus, regenerated plants, and plants in the next generation, indicating that epigenetic changes of DaiZ10 induced by callus formation are inherited transgenerationally.

Research Products

• [Journal Article] Epigenomic modification in rice controls meiotic recombination and segregation distortion (2015)
  • Author(s): Habu Y, Ando T, Ito S, Nagaki K, Kishimoto N, Taguchi-Shiobara F, Numa H, Yamaguchi K, Shigenobu S, Murata M, Meshi T, Yano M
  • Journal Title: Molecular Breeding Volume: 35 Issue: 4 Pages: 103-103
  • DOI: 10.1007/s11032-015-0299-0
  • Peer Reviewed
• [Journal Article] Does the upstream region possessing MULE-like sequence in rice upregulate PsbS1 gene expression? (2014)
  • Author(s): Nuruzzaman M, Kanno T, Amada R, Habu Y, Kasajima I, Ishikawa T, Kawai-Yamada M, Uchimiya H
  • Journal Title: PLoS ONE Volume: 9 Issue: 9 Pages: e102742-e102742
  • DOI: 10.1371/journal.pone.0102742
  • Peer Reviewed / Open Access
• [Journal Article] RICE SALT SENSITIVE3 forms a ternary complex with JAZ and class-C bHLH factors and regulates jasmonate-induced gene expression and root cell elongation (2013)
  • Author(s): Toda Y, Tanaka M, Ogawa D, Kurata K, Kurotani K, Habu Y, Ando T, Sugimoto K, Mitsuda N, Katoh E, Abe K, Miyao A, Hirochika H, Hattori T, Takeda S
  • Journal Title: The Plant Cell Volume: 25 Issue: 5 Pages: 1709-1725
  • DOI: 10.1105/tpc.113.112052
  • Peer Reviewed
• [Journal Article] Locus-specific requirements of DDR complexes for gene-body methylation of TAS genes in Arabidopsis thaliana (2013)
  • Author(s): Kanno T, Yoshikawa M, Habu Y
  • Journal Title: Plant Molecular Biology Reporter Volume: 31 Issue: 4 Pages: 1048-1052
  • DOI: 10.1007/s11105-012-0554-z
  • Peer Reviewed
• [Journal Article] エピミュータジェネシスと次世代育種への展開 (2013)
  • Author(s): 前川雅彦, 金澤章, 堤伸浩, 木下哲, 土生芳樹, 柴博史, 江面浩
  • Journal Title: 育種学研究 Volume: 15 Pages: 42-50
  • NAID: 10031173700
• [Journal Article] 3’ fragment of miR173-programmed RISC-cleaved RNA is protected from degradation in a complex with RISC and SGS3 (2013)
  • Author(s): Manabu Yoshikawa
  • Journal Title: Proceedings of the National Academy of Sciences of the United States of America Volume: 110 Issue: 10 Pages: 4117-4122
  • DOI: 10.1073/pnas.1217050110
  • Peer Reviewed
• [Journal Article] DDM1 (Decrease in DNA Methylation) genes in rice (Oryza sativa). (2012)
  • Author(s): Higo H, Tahir M, Takashima K, Miura A, Watanabe K, Tagiri A, Ugaki M, Ishikawa R, Eiguchi M, Kurata N, Sasaki T, Richards E, Takano M, Kishimoto N, Kakutani T, Habu Y
  • Journal Title: Molecular Genetics and Genomics Volume: 287(20) Issue: 10 Pages: 785-792
  • DOI: 10.1007/s00438-012-0717-5
  • Peer Reviewed
• [Presentation] イネの脱分化・再分化過程におけるトランスポゾンの活性制御 (2015)
  • Author(s): 土生芳樹
  • Organizer: 国立遺伝学研究所研究集会「転移因子と宿主の相互作用による生命進化」
  • Place of Presentation: 三島
  • Year and Date: 2015-02-27
  • Invited
• [Presentation] イネの脱分化・再分化過程および低メチル化系統における活性トランスポゾンの状態解析 (2014)
  • Author(s): 土生芳樹, 雑賀啓明, 沼寿隆
  • Organizer: 日本育種学会第126回講演会
  • Place of Presentation: 都城
  • Year and Date: 2014-09-26
• [Presentation] 転移活性をもつトランスポゾンの探索法を考える (2014)
  • Author(s): 深井英吾, 土生芳樹
  • Organizer: 日本育種学会第126回講演会
  • Place of Presentation: 都城
  • Year and Date: 2014-09-26
  • Invited
• [Presentation] シロイヌナズナTAS遺伝子領域に見られるDNAのメチル化に関与するタンパク因子の解析 (2012)
  • Author(s): 菅野達夫, 不動寺晶子, 保坂アエニ, 吉川学, 土生芳樹
  • Organizer: 第35回日本分子生物学会年会
  • Place of Presentation: 福岡
• [Presentation] SGS3による切断RNA-RISC複合体の安定化 (2012)
  • Author(s): 吉川学, 井木太一郎, 土生芳樹, 石川雅之
  • Organizer: 第14回日本RNA学会年会
  • Place of Presentation: 仙台
• [Presentation] エピゲノム操作の作物育種への応用 (2012)
  • Author(s): 土生芳樹
  • Organizer: 日本育種学会平成24年度秋季大会
  • Place of Presentation: 京都
  • Invited
• [Presentation] 表現型変化に依らないイネの活性トランスポゾン探索 (2012)
  • Author(s): 土生芳樹
  • Organizer: イネ遺伝学・分子生物学ワークショップ2012
  • Place of Presentation: 奈良
• [Presentation] イネ低メチル化系統における活性トランスポゾンの探索
  • Author(s): 沼寿隆, 山口勝司, 重信秀治, 土生芳樹
  • Organizer: 日本育種学会
  • Place of Presentation: 鹿児島
• [Presentation] Genome-wide methylation profile of DECREASE IN DNA METHYLATION1 (DDM1) knockdown in rice
  • Author(s): Habu Y, Numa H, Yamaguchi K, Shigenobu S
  • Organizer: 11th International Symposium on Rice Functional Genomics
  • Place of Presentation: ニューデリー
• [Presentation] シロイヌナズナにおけるRNA scilencingを介した遺伝子発現抑制機構の解析
  • Author(s): 菅野達夫, 吉川学, 土生芳樹
  • Organizer: 第36回日本分子生物学会年会
  • Place of Presentation: 神戸
  • Invited
• [Presentation] Genome-wide methylation profile of DECREASE IN DNA METHYLATION1 (DDM1) knockdown in rice
  • Author(s): Habu Y
  • Organizer: Translational Cereal Genomics
  • Place of Presentation: ウイーン
• [Presentation] A rice DDM1-deficient line: similarities and differences with ddm1 in Arabidopsis thaliana
  • Author(s): Numa H, Yamaguchi K, Shigenobu S, Habu Y
  • Organizer: 第55回日本植物生理学会年会
  • Place of Presentation: 富山
  • Invited