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Identification of novel siRNA pathways involved in plant environmental stress responses

Research Project

Project/Area Number 24657041
Research Category

Grant-in-Aid for Challenging Exploratory Research

Allocation TypeSingle-year Grants
Research Field Plant molecular biology/Plant physiology
Research InstitutionInstitute of Physical and Chemical Research

Principal Investigator

SEKI Motoaki  独立行政法人理化学研究所, 環境資源科学研究センター, チームリーダー (80281624)

Co-Investigator(Renkei-kenkyūsha) MATSUI Akihiro  独立行政法人理化学研究所, 環境資源科学研究センター, 研究員 (90443027)
Project Period (FY) 2012-04-01 – 2013-03-31
Project Status Completed (Fiscal Year 2013)
Budget Amount *help
¥4,030,000 (Direct Cost: ¥3,100,000、Indirect Cost: ¥930,000)
Fiscal Year 2012: ¥4,030,000 (Direct Cost: ¥3,100,000、Indirect Cost: ¥930,000)
Keywords植物分子機能 / small RNA / 植物 / ストレス / 発現制御 / 遺伝子 / 環境ストレス応答 / RNA制御 / アンチセンスRNA
Research Abstract

Arabidopsis transcriptome analysis under drought, cold, high-salinity stress and ABA treatment conditions, using tiling array, showed that approximately 6,000 novel transcripts existed in the antisense strand of the AGI code genes and they were induced under abiotic stress. To study the biogenesis mechanism of the antisense RNAs, accumulation of RD29A antisense RNA was analyzed, using RNA-dependent RNA polymerase (RDR) mutant series. Finally, we found that rdr1/2/6 mutation decreased accumulation of RD29A antisense RNA. RNase protection and RNA decay analyses showed that RD29A antisense RNA formed double stranded RNA and promoted degradation of RD29A mRNA. However, RNA-seq analysis did not detect siRNA accumulation in this locus. These results show that antisense RNAs are produced by RNA-dependent RNA polymerase (RDR) 1/2/6 without involving siRNA generation.

Report

(3 results)
  • 2013 Annual Research Report   Final Research Report ( PDF )
  • 2012 Research-status Report
  • Research Products

    (30 results)

All 2014 2013 2012 Other

All Journal Article (3 results) (of which Peer Reviewed: 3 results) Presentation (23 results) (of which Invited: 8 results) Remarks (4 results)

  • [Journal Article] Arabidopsis non-coding RNA regulation in abiotic stress responses (Review)2013

    • Author(s)
      Matsui, A. , Nguyen, A.H. , Nakaminami, K. , Seki, M.
    • Journal Title

      International Journal of Molecular Sciences

      Volume: 14 Issue: 11 Pages: 22642-22654

    • DOI

      10.3390/ijms141122642

    • Related Report
      2013 Annual Research Report 2013 Final Research Report
    • Peer Reviewed
  • [Journal Article] Positional correlation analysis improves reconstruction of full-length transcript and alternative isoform from noisy array signals or short reads2012

    • Author(s)
      Kawaguchi, S., Iida, K., Harada, E., Hanada, K., Matsui, A., Okamoto, M., Shinozaki, K., Seki, M. and Toyoda, T.
    • Journal Title

      Bioinformatics

      Volume: 28 Issue: 7 Pages: 929-937

    • DOI

      10.1093/bioinformatics/bts065

    • Related Report
      2013 Final Research Report 2012 Research-status Report
    • Peer Reviewed
  • [Journal Article] Surveillance of 3'non-coding transcripts requires FIERY1 and XRN3 in Arabidopsis2012

    • Author(s)
      Kurihara, Y., Schmitz, R.J., Nery, J.R., Schultz, M.D., Okubo-Kurihara, E., Morosawa, T., Tanaka, M., Toyoda, T., Seki, M. and Ecker, J.R.
    • Journal Title

      G3

      Volume: 2 Issue: 4 Pages: 487-498

    • DOI

      10.1534/g3.111.001362

    • Related Report
      2013 Final Research Report 2012 Research-status Report
    • Peer Reviewed
  • [Presentation] Novel Epigenetic and RNA Regulation in Plant Abiotic Stress Responses2014

    • Author(s)
      Seki, M.
    • Organizer
      Invited Seminar at Rockefeller Univ.
    • Place of Presentation
      New York, USA (Host : Prof. Nam-Hai Chua)
    • Year and Date
      2014-01-10
    • Related Report
      2013 Final Research Report
  • [Presentation] Novel Epigenetic and RNA Regulation in Plant Abiotic Stress Responses2014

    • Author(s)
      Seki, M.
    • Organizer
      Invited Seminar at Rockefeller Univ. (Host: Prof. Nam-Hai Chua)
    • Place of Presentation
      Rockefeller Univ., New York, USA
    • Related Report
      2013 Annual Research Report
    • Invited
  • [Presentation] 環境ストレス条件下での新規アンチセンスRNAの生成はRNA-dependent RNA polymeraseによって行われる2013

    • Author(s)
      松井章浩, 飯田慶, 山口勝司, 田中真帆, 石田順子, 諸澤妙子, 重信秀治, 篠崎一雄, 豊田哲郎, 関原明
    • Organizer
      第54回日本植物生理学会年会
    • Place of Presentation
      岡山
    • Year and Date
      2013-03-21
    • Related Report
      2013 Final Research Report
  • [Presentation] Novel antisense RNA and epigenetic regulation in plant abiotic stress responses2013

    • Author(s)
      Matsui, A., Kim, J.M., Kim To, T., Iida, K., Tanaka, M., Ishida, J., Morosawa, T., Toyoda, T. and Seki, M.
    • Organizer
      Abiotic Stress Workshop, Plant & Animal Genome ASIA 2013
    • Place of Presentation
      Singapore
    • Year and Date
      2013-03-18
    • Related Report
      2013 Final Research Report 2012 Research-status Report
  • [Presentation] Novel Antisense RNA Regulation Functions in Plant Abiotic Stress Responses2013

    • Author(s)
      Matsui, A., Iida, K., Tanaka, M., Ishida, J., Morosawa, T., Takahashi, S., Toyoda, T. and Seki, M.
    • Organizer
      ASPB Satellite Meeting "Post-transcriptional Gene Regulation in Plants"
    • Place of Presentation
      Providence, USA
    • Related Report
      2013 Final Research Report
  • [Presentation] Novel non-coding antisense RNA regulation in plant abiotic stress responses2013

    • Author(s)
      Seki, M.
    • Organizer
      International Symposium "Non-coding RNA in plants"
    • Place of Presentation
      Wittenberg, Germany
    • Related Report
      2013 Final Research Report
  • [Presentation] Novel RNA and Epigenetic Regulations in Plant Abiotic Stress Responses2013

    • Author(s)
      Matsui, A., Kim, J.M., To, T.K., Iida, K., Tanaka, M., Ishida, J., Morosawa, T., Toyoda, T. and Seki, M.
    • Organizer
      2013 International Symposium on Agricultural Biotechnology : Emerging Topics on Plant Stress Biology
    • Place of Presentation
      Taipei, Taiwan
    • Related Report
      2013 Final Research Report
  • [Presentation] Novel RNA and Epigenetic Regulations in Plant Abiotic Stress Responses.2013

    • Author(s)
      Matsui et al.
    • Organizer
      2013 International Symposium on Agricultural Biotechnology: Emerging Topics on Plant Stress Biology
    • Place of Presentation
      Taipei, Taiwan
    • Related Report
      2013 Annual Research Report
    • Invited
  • [Presentation] Novel non-coding antisense RNA regulation in plant abiotic stress responses.2013

    • Author(s)
      Seki, M.
    • Organizer
      International Symposium "Non-coding RNA in plants"
    • Place of Presentation
      Wittenberg, Germany
    • Related Report
      2013 Annual Research Report
    • Invited
  • [Presentation] Novel Antisense RNA Regulation Functions in Plant Abiotic Stress Responses.2013

    • Author(s)
      Matsui, A. et al.
    • Organizer
      ASPB Satellite Meeting "Post-transcriptional Gene Regulation in Plants"
    • Place of Presentation
      Providence, USA
    • Related Report
      2013 Annual Research Report
    • Invited
  • [Presentation] 環境ストレス条件下での新規アンチセンスRNAの生成はRNA-dependent RNA polymeraseによって行われる2013

    • Author(s)
      松井章浩ら
    • Organizer
      第54回日本植物生理学会年会
    • Place of Presentation
      岡山大学、岡山市、岡山
    • Related Report
      2012 Research-status Report
  • [Presentation] Novel RNA and Epigenetic Regulation in Plant Abiotic Stress Responses2012

    • Author(s)
      Seki, M.
    • Organizer
      Seminar at University of Cambridge
    • Place of Presentation
      Cambridge, UK
    • Year and Date
      2012-12-13
    • Related Report
      2013 Final Research Report
  • [Presentation] Novel antisense RNA and epigenetic regulations in plant abiotic stress responses2012

    • Author(s)
      Seki, M.
    • Organizer
      School of Biological Sciences Seminar, Royal Holloway, University of London
    • Place of Presentation
      Egham, UK
    • Year and Date
      2012-12-12
    • Related Report
      2013 Final Research Report 2012 Research-status Report
  • [Presentation] Novel posttranscriptional and epigenetic regulation in plant abiotic stress responses2012

    • Author(s)
      Seki, M.
    • Organizer
      Workshops on Biotechnology Research and Application in Agriculture2
    • Place of Presentation
      AGI, Ha Noi, Viet Nam
    • Year and Date
      2012-09-05
    • Related Report
      2013 Final Research Report
  • [Presentation] Novel RNA and epigenetic regulation in plant abiotic stress responses, and Establishiment of cassava functional genomics platform and its application to molecular breeding2012

    • Author(s)
      Seki, M.
    • Organizer
      Seminar at Hanoi University of Agriculture
    • Place of Presentation
      Hanoi University of Agriculture, Ha Noi, Vietnam
    • Year and Date
      2012-06-09
    • Related Report
      2013 Final Research Report
  • [Presentation] Novel non-coding antisense RNA regulation in plant abiotic stress responses2012

    • Author(s)
      Matsui, A., Iida, K., Tanaka, M., Ishida, J., Morosawa, T., Toyoda, T. and Seki, M.
    • Organizer
      Cold Spring Harbor Conferences Asia, Plany Epigenetics, Stress and Evolution
    • Place of Presentation
      Suzhou, China
    • Related Report
      2013 Final Research Report 2012 Research-status Report
  • [Presentation] Stress-inducible non-coding antisense RNAs are generated by RDR-mediated RNA dopying mechanism and function in the turnover of the sense mRNAs under abiotic stress2012

    • Author(s)
      Matsui, A., Iida, K., Yamaguchi, K., Tanaka, M., Ishida, J., Morosawa, T., Kim, J.-M., Shigenobu, S., Shinozaki, K., Toyoda, T. and Seki, M.
    • Organizer
      International Plant RNA Workshop 2012
    • Place of Presentation
      Vienna, Austria
    • Related Report
      2013 Final Research Report 2012 Research-status Report
  • [Presentation] Novel RNA and epigenetic regulation in plant abiotic stress responses2012

    • Author(s)
      Seki, M.
    • Organizer
      GNU Plant Science Symposium 2012
    • Place of Presentation
      Jinju, Korea
    • Related Report
      2013 Final Research Report 2012 Research-status Report
  • [Presentation] Biogenesis mechanism and function of stress-inducible non-protein-coding antisense RNAs in Arabidopsis2012

    • Author(s)
      Seki, M., Iida, K., Yamaguchi, K., Tanaka, M., Ishida, J., Morosawa, T., Shigenobu, S., Shinozaki, K., Toyoda, T. and Matsui, A.
    • Organizer
      BIT's 3rd Annual World on DNA and Genome day
    • Place of Presentation
      Xi'an, China
    • Related Report
      2013 Final Research Report
  • [Presentation] Biogenesis mechanism and function of stress-inducible non-protein-coding antisense RNAs in Arabidopsis2012

    • Author(s)
      Seki, M.
    • Organizer
      BIT's 3rd Annual World on DNA and Genome day
    • Place of Presentation
      Xian, China
    • Related Report
      2012 Research-status Report
    • Invited
  • [Presentation] Novel RNA and epigenetic regulation in plant abiotic stress responses, and Establishiment of cassava functional genomics platform and its application to molecular breeding2012

    • Author(s)
      Seki, M.
    • Organizer
      Seminar at Hanoi University of Agriculture
    • Place of Presentation
      Hanoi, Vietnam
    • Related Report
      2012 Research-status Report
    • Invited
  • [Presentation] Novel posttranscriptional and epigenetic regulation in plant abiotic stress responses2012

    • Author(s)
      Seki, M.
    • Organizer
      AGI Workshops on Biotechnology Research and Application in Agriculture
    • Place of Presentation
      Hanoi, Vietnam
    • Related Report
      2012 Research-status Report
    • Invited
  • [Presentation] Novel RNA and Epigenetic Regulation in Plant Abiotic Stress Responses.2012

    • Author(s)
      Seki, M.
    • Organizer
      Seminar at University of Cambridge
    • Place of Presentation
      Cambridge, UK
    • Related Report
      2012 Research-status Report
    • Invited
  • [Remarks] 理化学研究所環境資源科学研究センター植物ゲノム発現研究チーム

    • URL

      http://www.csrs.riken.jp/jp/labs/pgnrt/index.html

    • Related Report
      2013 Final Research Report
  • [Remarks] 理化学研究所環境資源科学研究センター、植物ゲノム発現研究チームホームページ

    • URL

      http://www.csrs.riken.jp/jp/labs/pgnrt/index.html

    • Related Report
      2013 Annual Research Report
  • [Remarks] 独立行政法人理化学研究所環境資源科学研究センター、植物ゲノム発現研究チーム(日本語ホームページ)

    • URL

      http://www.csrs.riken.jp/jp/labs/pgnrt/index.html

    • Related Report
      2012 Research-status Report
  • [Remarks] 独立行政法人理化学研究所環境資源科学研究センター、植物ゲノム発現研究チーム(英語ホームページ)

    • URL

      http://www.csrs.riken.jp/en/labs/pgnrt/index.html

    • Related Report
      2012 Research-status Report

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Published: 2013-05-31   Modified: 2019-07-29  

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