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Analysis of mRNA fates with exclusive function mediated by RNA granules

Research Project

Project/Area Number 15H04628
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypeSingle-year Grants
Section一般
Research Field Applied molecular and cellular biology
Research InstitutionThe University of Tokyo

Principal Investigator

Watanabe Yuichiro  東京大学, 大学院総合文化研究科, 教授 (60183125)

Co-Investigator(Kenkyū-buntansha) 濱田 隆宏  東京大学, 大学院総合文化研究科, 助教 (20452534)
Co-Investigator(Renkei-kenkyūsha) Sato Masanao  北海道大学, 大学院農学研究科, 助教 (20517693)
Okamoto Akimitsu  東京大学, 先端科学技術研究センター, 教授 (60314233)
Project Period (FY) 2015-04-01 – 2018-03-31
Project Status Completed (Fiscal Year 2017)
Budget Amount *help
¥15,600,000 (Direct Cost: ¥12,000,000、Indirect Cost: ¥3,600,000)
Fiscal Year 2017: ¥3,510,000 (Direct Cost: ¥2,700,000、Indirect Cost: ¥810,000)
Fiscal Year 2016: ¥4,810,000 (Direct Cost: ¥3,700,000、Indirect Cost: ¥1,110,000)
Fiscal Year 2015: ¥7,280,000 (Direct Cost: ¥5,600,000、Indirect Cost: ¥1,680,000)
Keywords植物 / mRNA制御 / 環境応答 / 高温ストレス / ストレス顆粒 / P-ボディー / RNA顆粒 / シロイヌナズナ / mRNa分解 / 翻訳抑制 / イネ / 野外環境 / 生体機能利用 / 環境対応 / 気候変動 / 環境調和型農林水産 / mRNA分解 / 脱キャップ酵素 / ストレス / バイオテクノロジー / プロセッシングボディー / RNAプロファイリング
Outline of Final Research Achievements

We have studied dynamic changes of P-bodies and stress granules (SG) in Arabidopsis before and after heat stress application. DCP2 (decapping enzyme 2; P-body marker) began to accumulate to cytoplasmic granules preformed by DCP1, while eIF4A2 (SG marker) started to form granules independently from DCP1/2. SG often came close to P-bodies over time, and some time later it detached the contact with P-bodies. We also analyzed the RNA species of which levels were elevated and those lessened after temperature rises. It turned out that almost 7000 RNA species increased and almost the same number of RNA species decreased by heat stress. It meant that 30% of total genes were transcriptionally activated while another 30% of mRNAs were specifically destabilized. When the temperature returned normal, about half member of each gene set showed reciprocal pattern in accumulation. The phosphorylation level of DCP1 reflects the rise of temperature and is likely to be involved in DCP2 accumulation.

Report

(4 results)
  • 2017 Annual Research Report   Final Research Report ( PDF )
  • 2016 Annual Research Report
  • 2015 Annual Research Report
  • Research Products

    (33 results)

All 2018 2017 2016 2015 Other

All Int'l Joint Research (4 results) Journal Article (10 results) (of which Int'l Joint Research: 4 results,  Peer Reviewed: 9 results,  Open Access: 8 results,  Acknowledgement Compliant: 3 results) Presentation (13 results) (of which Int'l Joint Research: 6 results,  Invited: 6 results) Book (1 results) Remarks (4 results) Funded Workshop (1 results)

  • [Int'l Joint Research] Monash University(オーストラリア)

    • Related Report
      2017 Annual Research Report
  • [Int'l Joint Research] University of California, Davis(米国)

    • Related Report
      2017 Annual Research Report
  • [Int'l Joint Research] Max Planck Institute(ドイツ)

    • Related Report
      2017 Annual Research Report
  • [Int'l Joint Research] モナシュ大学(オーストラリア)

    • Related Report
      2015 Annual Research Report
  • [Journal Article] The GYF domain protein PSIG1 dampens the induction of cell death during plant-pathogen interactions.2017

    • Author(s)
      Matsui, H., Nomura, Y., Egusa, M., Hamada, T., Hyon, G-S., Kaminaka, H., Watanabe, Y., Ueda, T., Trujillo, M., Shirasu, K., Nakagami, H.
    • Journal Title

      PLoS Genetics

      Volume: -

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Insights into Land Plant Evolution Garnered from the Marchantia polymorpha Genome.2017

    • Author(s)
      Bowman J, Kouchi T,..(106名)..Yokoyama R, ..(4名)
    • Journal Title

      Cell

      Volume: 171 Issue: 2 Pages: 287-304

    • DOI

      10.1016/j.cell.2017.09.030

    • NAID

      120006353839

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] 植物におけるRNA顆粒2017

    • Author(s)
      濱田隆宏,渡邊雄一郎
    • Journal Title

      BSJ-Review

      Volume: 8 Issue: B Pages: 99-109

    • DOI

      10.24480/bsj-review.8b7.00117

    • ISSN
      2432-9819
    • Related Report
      2017 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] 陸上植物を小分子RNAとRNAサイレンシング機能からみたとき2017

    • Author(s)
      渡邊雄一郎
    • Journal Title

      生物科学

      Volume: 68 Pages: 196-205

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Light perception in aerial tissues activates DWF4 expression in root tips and induces root growth2017

    • Author(s)
      Sakaguchi, J and Watanabe, Y
    • Journal Title

      Scientific Reports

      Volume: 7 Issue: 1 Pages: 1808-1808

    • DOI

      10.1038/s41598-017-01872-4

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] The Naming of Names: Guidelines for Gene Nomenclature in Marchantia2016

    • Author(s)
      Bowman, J., Araki, T., Arteaga-Vazquez, M., Berger, F., Dolan, L., Haseloff, J., Ishizaki, K., Kyozuka, J., Lin, S.S., Nagasaki, H., Nakagami, H., Nakajima, K., Nakamura, Y., Ohashi-Ito, K., Sawa, S., Shimamura, M., Solano, R., Tsukaya, H., Ueda, T., Watanabe, Y., Yamato, K.T., Zachgo, S., and Kohchi, T.
    • Journal Title

      Plnat cell Physiology

      Volume: 57 Issue: 2 Pages: 257-261

    • DOI

      10.1093/pcp/pcv193

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Profiling and Characterization of Small RNAs in the Liverwort, Marchantia polymorpha, Belonging to the First Diverged Land Plants2016

    • Author(s)
      Masayuki Tsuzuki, Ryuichi Nishihama, Kimitsune Ishizaki, Yukio Kurihara, Minami Matsui, John L. Bowman, Takayuki Kohchi, Takahiro Hamada, and Yuichiro Watanabe
    • Journal Title

      Plant and Cell Physiology

      Volume: 57(2) Issue: 2 Pages: 359-372

    • DOI

      10.1093/pcp/pcv182

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
  • [Journal Article] <i>Arabidopsis</i> AtRRP44 has ribonuclease activity that is required to complement the growth defect of yeast <i>rrp44</i> Mutant2016

    • Author(s)
      Kumakura, N., Otsuki, H., Ito, M. et al.
    • Journal Title

      Plant Biotechnology

      Volume: 33 Issue: 2 Pages: 77-85

    • DOI

      10.5511/plantbiotechnology.16.0316a

    • NAID

      130005164800

    • ISSN
      1342-4580, 1347-6114
    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access / Acknowledgement Compliant
  • [Journal Article] 植物成長段階の切替えスイッチとしてのmiRNA2016

    • Author(s)
      都筑正行、濱田隆宏、渡辺雄一郎
    • Journal Title

      現代化学

      Volume: N/A Pages: 46-50

    • NAID

      40020936590

    • Related Report
      2016 Annual Research Report
  • [Journal Article] Diffuse Decapping Enzyme DCP2 Accumulates in DCP1 Foci Under Heat Stress in Arabidopsis thaliana2015

    • Author(s)
      Motomura K, Le TN. Q, Hamada T, Kutsuna N, Mano S, Nishimura M and Watanabe Y.
    • Journal Title

      Plant Cell Physiology

      Volume: 56 Issue: 1 Pages: 107-115

    • DOI

      10.1093/pcp/pcu151

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Open Access / Acknowledgement Compliant
  • [Presentation] Liverwort life cycle and the miRNAs2018

    • Author(s)
      Masayuki Tsuzuki, Kazutaka Futagami, Takahiro Hamada, Yuichiro Watanabe
    • Organizer
      第59回日本植物生理学会年会
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Functional Analysis of miR319 in liverwort, Marchantia polymorpha2017

    • Author(s)
      二神和敬, 都筑正行、濱田隆宏、渡邊雄一郎
    • Organizer
      第19回日本RNA学会年会
    • Related Report
      2017 Annual Research Report
  • [Presentation] Lessons from biotic and abiotic stress studies2017

    • Author(s)
      Yuichiro Watanabe
    • Organizer
      Future prospects of control measures for plant disease and insect pests for sustainable crop production
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] 温度変化に応答した微小管ダイナミクス2017

    • Author(s)
      濱田隆宏、渡邊雄一郎
    • Organizer
      日本植物学会第81回大会
    • Related Report
      2017 Annual Research Report
  • [Presentation] ゼニゴケの小分子RNA解析からみえる陸上植物の発生制御モジュール2016

    • Author(s)
      渡邊 雄一郎、都筑 正行、濱田 隆宏、河内 孝之、John L. Bowman
    • Organizer
      第39回日本分子生物学会年会
    • Place of Presentation
      横浜パシフィコ(神奈川県横浜市)
    • Year and Date
      2016-11-30
    • Related Report
      2016 Annual Research Report
    • Invited
  • [Presentation] 顕微鏡を基盤とした初期発生におけるmRNA分解機構の比較解析2016

    • Author(s)
      元村一基、丸山大輔、栗原大輔、熊倉直祐、渡邊雄一郎、東山哲也
    • Organizer
      日本植物学会第80回大会
    • Place of Presentation
      沖縄コンベンションセンター(沖縄県宜野湾市)
    • Year and Date
      2016-09-16
    • Related Report
      2016 Annual Research Report
  • [Presentation] 陸上植物に保存されたmicroRNAによる発生制御機構2016

    • Author(s)
      都筑正行、濱田隆宏、渡邊雄一郎
    • Organizer
      日本植物学会第80回大会
    • Place of Presentation
      沖縄コンベンションセンター(沖縄県宜野湾市)
    • Year and Date
      2016-09-16
    • Related Report
      2016 Annual Research Report
    • Invited
  • [Presentation] Imaging Analysis in roles of mRNA decay at early plant development2016

    • Author(s)
      Motomura, K., Maruyama, D., Kurihara, D., Watanabe, Y., Higashiyama, T.
    • Organizer
      第21回RNA Society国際会議
    • Place of Presentation
      京都国際会議場 (京都府京都市)
    • Year and Date
      2016-06-28
    • Related Report
      2016 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Communication between nucleus and cytoplasm through RNA-interacting proteins2016

    • Author(s)
      Yuichiro Watanabe, Takahiro Hamada
    • Organizer
      The 57th Annual Meeting of the Japanese Society of Plant Physiologists
    • Place of Presentation
      岩手大学(岩手県盛岡市)
    • Year and Date
      2016-03-18
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Analysis of TARP mediated-siRNA biosynthesis in Arabidopsis2016

    • Author(s)
      Tsukada, M., Tsuzuki, M., Fukao, Y., Kurihara, Y., Matsui, M., Motomura, K., Tamura, K., Hara-Nishimura, I., Watanabe, Y., Hamada, T.
    • Organizer
      日本植物生理学会
    • Place of Presentation
      岩手大学(岩手県盛岡市)
    • Year and Date
      2016-03-18
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research
  • [Presentation] 第一回RNA顆粒・RNAタンパク質複合体研究会2016

    • Author(s)
      濱田隆宏
    • Organizer
      第一回RNA顆粒・RNAタンパク質複合体研究会
    • Place of Presentation
      基礎生物学研究所(愛知県岡崎市)
    • Related Report
      2016 Annual Research Report
    • Invited
  • [Presentation] Characterization of small RNAs in a liverwort, Marchantia polymorpha2015

    • Author(s)
      Masayuki Tsuzuki, Tsuyoshi Fujimoto, Ryuichi Nishihama, Kimitsune Ishizaki, Yukio Kurihara, Minami Matsui, Takayuki Kohchi, Takahiro Hamada, Yuichiro Watanabe
    • Organizer
      EMBO Symposium "The Non-Coding Genome"
    • Place of Presentation
      EMBL ( Heidelberg, ドイツ)
    • Year and Date
      2015-10-18
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research
  • [Presentation] 苔類ゼニゴケにおけるmicroRNAの機能解析2015

    • Author(s)
      都筑正行,藤本剛史、西浜竜一、石崎公庸、栗原志夫、松井南、河内孝之、濱田隆宏、渡邊雄一郎
    • Organizer
      日本植物学会第79回大会
    • Place of Presentation
      朱鷺メッセ(新潟県新潟市)
    • Year and Date
      2015-09-06
    • Related Report
      2015 Annual Research Report
  • [Book] Plant Epigenetics: Methods and Protocols2016

    • Author(s)
      Tsuzuki, M. and Watanabe, Y.
    • Total Pages
      22
    • Publisher
      Springer
    • Related Report
      2016 Annual Research Report
  • [Remarks] ストレスに応答して現れるRNA顆粒の解析

    • URL

      http://park.itc.u-tokyo.ac.jp/RNAwatanabe/study.html

    • Related Report
      2017 Annual Research Report
  • [Remarks] 陸上植物の多様性と遺伝子発現制御 ― evolution and gene regulation

    • URL

      http://park.itc.u-tokyo.ac.jp/RNAwatanabe/study.html

    • Related Report
      2017 Annual Research Report
  • [Remarks] 環境変化によるストレス応答に対してのRNA顆粒による遺伝子発現制御

    • URL

      http://park.itc.u-tokyo.ac.jp/RNAwatanabe/study.html

    • Related Report
      2016 Annual Research Report 2015 Annual Research Report
  • [Remarks] ゼニゴケの発生過程における小分子RNAを介した遺伝子発現制御

    • URL

      http://park.itc.u-tokyo.ac.jp/RNAwatanabe/study.html

    • Related Report
      2016 Annual Research Report
  • [Funded Workshop] The 57th Annual Meeting of the Japanese Society of Plant Physiologists2016

    • Place of Presentation
      Iwate University, Morioka, Iwata, Japan
    • Year and Date
      2016-03-18
    • Related Report
      2015 Annual Research Report

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Published: 2015-04-16   Modified: 2022-10-07  

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