アンチセンスncRNAを介した植物の環境ストレス認識・記憶システムの解析

• Project Area: Integrative system of autonomous environmental signal recognition and memorization for plant plasticity
• Project/Area Number: 16H01476
• Research Category: Grant-in-Aid for Scientific Research on Innovative Areas (Research in a proposed research area)
• Allocation Type: Single-year Grants
• Review Section: Biological Sciences
• Research Institution: Institute of Physical and Chemical Research
• Principal Investigator: 関 原明 国立研究開発法人理化学研究所, 環境資源科学研究センター, チームリーダー (80281624)
• Project Period (FY): 2016-04-01 – 2018-03-31
• Project Status: Completed (Fiscal Year 2017)
• Budget Amount: ¥10,400,000 (Direct Cost: ¥8,000,000、Indirect Cost: ¥2,400,000); Fiscal Year 2017: ¥5,200,000 (Direct Cost: ¥4,000,000、Indirect Cost: ¥1,200,000); Fiscal Year 2016: ¥5,200,000 (Direct Cost: ¥4,000,000、Indirect Cost: ¥1,200,000)
• Keywords: アンチセンスRNA / 環境ストレス適応 / 長鎖ノンコーディングRNA / 非翻訳型RNA / RNA制御 / シロイヌナズナ

Outline of Annual Research Achievements

本課題では、環境ストレス誘導性のアンチセンスncRNAに着目し、生成に関わる新規な因子を同定し、アンチセンスncRNAを介した植物の環境ストレス適応システムの解明を目指す。

これまでに得られた研究実績は以下の通りである。
rdr1/2/6の3重変異体および野生株を用いて乾燥ストレス過程におけるトランスクリプトームを解析し、乾燥ストレス条件下でrdr1/2/6におけるアンチセンスncRNAの生成量が野生株と比べて減少する遺伝子を1,136個同定した。これら遺伝子領域の多くにおいて乾燥ストレス条件下でRDR1/2/6依存的なsiRNAの蓄積は観察されなかった。DCP5遺伝子の変異体においてアンチセンスncRNAの発現量が減少し、XRN4遺伝子の変異体においてアンチセンスncRNA発現量が増加していた。これらの結果は、センスRNAがDCP5によりdecappingされた後、センスRNAの分解産物を鋳型として、RDR1/2/6によりアンチセンスncRNAが生成することを示唆する。cordycepinを用いた解析から、rdr1/2/6変異体において乾燥ストレス誘導性遺伝子のRD29AのmRNA分解が野生株と比べて減少していることが示された。RNaseプロテクションアッセイから、アンチセンスncRNAがセンスRNAと細胞の中で二本鎖RNAを生成することも示された。rdr1/2/6の三重変異体は、野生株と比べて再吸水後の根の成長再開が遅れ主根が短い表現型を示したが、この表現型はRDRファミリーの単一変異体や二重変異体、dcl2/3/4の変異体では観察されなかった。上記の結果から、RDR1/2/6依存性のアンチセンスncRNAが既知のDCL2/3/4依存的なsiRNA生成を介さずに植物の乾燥ストレス適応に機能している事が示された。

Research Progress Status

29年度が最終年度であるため、記入しない。

Strategy for Future Research Activity

29年度が最終年度であるため、記入しない。

Research Products

• [Journal Article] Long non-coding RNAs are involved in plant stress responses (2018)
  • Author(s): Matsui, A. and Seki, M.
  • Journal Title: "Methods in Molecular Biology - Plant lncRNAs - (Edited by Drs. Julia Chekanova and Hsiao-Lin Wang)". Springer Volume: 印刷中
  • Peer Reviewed
• [Journal Article] Transcriptomic analysis of Arabidopsis thaliana plants treated with the Ky-9 and Ky-72 histone deacetylase inhibitors (2018)
  • Author(s): Nguyen HM, Sako K, Matsui A, Ueda M, Tanaka M, Ito A, Nishino N, Yoshida M, Seki M.
  • Journal Title: Plant Signaling and Behavior Volume: 13 Issue: 3 Pages: e1448333-e1448333
  • DOI: 10.1080/15592324.2018.1448333
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Monitoring transcriptomic changes in soil-grown roots and shoots of Arabidopsis thaliana subjected to a progressive drought stress (2018)
  • Author(s): Bashir, K., Rasheed, S., Matsui, A., Iida, K., Tanaka, M. and Seki, M.
  • Journal Title: Methods in Molecular Biology - Root Development - (Edited by Drs. Elke Barbez and Daniela Ristova) Volume: 1761 Pages: 223-230
  • DOI: 10.1007/978-1-4939-7747-5_17
  • ISBN: 9781493977468, 9781493977475
  • Peer Reviewed / Int'l Joint Research
• [Journal Article] Novel stress-inducible antisense RNAs of protein-coding loci are synthesized by Arabidopsis RDRs (2017)
  • Author(s): Matsui, A., Iida, K., Tanaka, M., Yamaguchi, K., Mizunashi, K., Kim, J.M., Takahashi, S., Kobayashi, N., Shigenobu, S., Shinozaki, K. and Seki, M.
  • Journal Title: Plant Physiology Volume: 175 Issue: 1 Pages: 457-472
  • DOI: 10.1104/pp.17.00787
  • Peer Reviewed / Open Access
• [Journal Article] Ethanol Enhances High-Salinity Stress Tolerance by Detoxifying Reactive Oxygen Species in Arabidopsis thaliana and Rice (2017)
  • Author(s): Nguyen HM, Sako K, Matsui A, Suzuki Y, Mostofa MG, Ha CV, Tanaka M, Tran LP, Habu Y, Seki M
  • Journal Title: Frontiers in Plant Science Volume: 8 Pages: 1001-1001
  • DOI: 10.3389/fpls.2017.01001
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] The Distinct Roles of Class I and II RPD3-Like Histone Deacetylases in Salinity Stress Response (2017)
  • Author(s): Ueda M, Matsui A, Tanaka M, Nakamura T, Abe T, Sako K, Sasaki T, Kim JM, Ito A, Nishino N, Shimada H, Yoshida M, Seki M
  • Journal Title: Plant Physiology Volume: 175 Issue: 4 Pages: 1760-1773
  • DOI: 10.1104/pp.17.01332
  • Peer Reviewed / Open Access
• [Journal Article] The histone deacetylase inhibitor suberoylanilide hydroxamic acid alleviates salinity stress in cassava. (2017)
  • Author(s): Patanun, O., Ueda, M., Itouga, M., Kato, Y., Utsumi, Y., Matsui, A., Tanaka, M., Utsumi, C., Sakakibara, H., Yoshida, M., Narangajavana, J., and Seki, M.
  • Journal Title: Front. Plant Sci. Volume: 7 Pages: 2039-2039
  • DOI: 10.3389/fpls.2016.02039
  • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
• [Journal Article] Overexpression of oligouridylate binding protein 1b results in ABA hypersensitivity. (2017)
  • Author(s): Nguyen, C.C, Nakaminami, K., Matsui, A., Watanabe, S., Kanno, Y., Seo, M. and Seki, M.
  • Journal Title: Plant Signaling & Behavior Volume: 12 Issue: 2 Pages: e1282591-e1282591
  • DOI: 10.1080/15592324.2017.1282591
  • Peer Reviewed / Acknowledgement Compliant
• [Journal Article] Oligouridylate binding protein 1b plays an integral role in plant heat stress tolerance. (2016)
  • Author(s): Nguyen, C.C, Nakaminami, K., Matsui, A., Kobayashi, S., Kurihara, Y., Toyooka, K., Tanaka, M. and Seki, M.
  • Journal Title: Front. Plant Sci. Volume: 7 Pages: 853-853
  • DOI: 10.3389/fpls.2016.00853
  • Peer Reviewed / Open Access / Acknowledgement Compliant
• [Journal Article] Sm-like protein-mediated RNA metabolism is required for heat stress tolerance in Arabidopsis. (2016)
  • Author(s): Okamoto, M., Matsui, A., Tanaka, M., Morosawa, T., Ishida, J., Iida, K., Mochizuki, Y., Toyoda, T. and Seki, M.
  • Journal Title: Front. Plant Sci. Volume: 7 Pages: 1079-1079
  • DOI: 10.3389/fpls.2016.01079
  • Peer Reviewed / Open Access / Acknowledgement Compliant
• [Presentation] Biogenesis mechanism and function of stress-inducible non-coding antisense RNAs (2018)
  • Author(s): Seki, M. and Matsui, A.
  • Organizer: RNA-mediated plant behaviors”, The 59th JSPP Annual Meeting Symposium
  • Int'l Joint Research / Invited
• [Presentation] Introduction of RIKEN, CSRS and Plant Genomic Network Research Team (2018)
  • Author(s): Seki, M.
  • Organizer: The International Workshop at Univ. of Punjab on "Drought stress, Challenges for Agriculture and mitigation strategies"
  • Int'l Joint Research / Invited
• [Presentation] Novel stress-inducible antisense RNAs of protein-coding loci are synthesized by Arabidopsis RDRs (2017)
  • Author(s): Akihiro Matsui, Kei Iida, Maho Tanaka, Ri-ichiro Manabe, Katsushi Yamaguchi, Kayoko Mizuhashi, Jong-Myong Kim, Norio Kobayashi, Shuji shigenobu, Kazuo Shinozaki, Motoaki Seki
  • Organizer: International Symposium on “Environmental Stress Adaptation and Memory in Plants"
  • Place of Presentation: RIKEN Yokohama Campus, Kanagawa, Japan
  • Year and Date: 2017-02-27
  • Int'l Joint Research / Invited
• [Presentation] Perspective by Plant Scientist (2017)
  • Author(s): Seki, M.
  • Organizer: International Meeting on Celebrating the 65th Anniversary of Pakistan-Japan Diplomatic Relations
  • Invited
• [Presentation] Novel Epigenetic and RNA Regulation in Plant Abiotic Stress Adaptation (2017)
  • Author(s): Seki, M.
  • Organizer: Invited Seminar at National Taiwan Univ.
  • Invited
• [Presentation] Novel Epigenetic, Chemical and RNA Regulation in Plant Abiotic Stress (2017)
  • Author(s): Seki, M., Kim, J.M., Matsui, A., Nguyen, H.M., Sako, K., Sunaoshi, Y., To, K.T., Devoto, A., Bashir, K., Rasheed, S., Ueda, M., Ha, C.V., Utsumi, Y., Ishida, J., Tanaka, M., Matsunaga, S. and Habu, Y.
  • Organizer: The International Symposium「Taiwan-Japan Plant Biology 2017」
  • Int'l Joint Research / Invited
• [Presentation] Novel Chemical and RNA Regulation in Plant Abiotic Stress Adaptation (2017)
  • Author(s): Seki, M., Kim, J.M., Matsui, A., Nguyen, H.M., Sako, K., Sunaoshi, Y., To, K.T., Devoto, A., Bashir, K., Rasheed, S., Ueda, M., Ha, C.V., Utsumi, Y., Ishida, J., Tanaka, M., Matsunaga, S. and Habu, Y.
  • Organizer: The Nature Conference, “Agricultural Genomics 2017: Functional Genomics toward Green Crops for Sustainable Agriculture”
  • Int'l Joint Research / Invited
• [Presentation] Novel stress-inducible antisense RNAs of proteincoding loci are synthesized by RDRs in Arabidopsis (2017)
  • Author(s): Akihiro Matsui，Kei Iida，Maho Tanaka，Ri-ichiroh Manabe ，Katsushi Yamaguchi ，Kayoko Mizuhashi ， Jong-Myong Kim，Shuji Shigenobu，Kazuo Shinozaki，Motoaki Seki
  • Organizer: 第58回日本植物生理学会年会
  • Place of Presentation: 鹿児島大学 郡元キャンパス、鹿児島
• [Presentation] Functional analysis of oligouridylate binding protein 1b in abscisic acid response (2017)
  • Author(s): Thi Cam Chau Nguye ，Kentaro Nakaminami ，Akihiro Matsui, Shunsuke Watanabe，Yuri Kanno，Mitsunori Seo，Motoaki Seki
  • Organizer: 第58回日本植物生理学会年会
  • Place of Presentation: 鹿児島大学 郡元キャンパス、鹿児島
• [Presentation] Novel Epigenetic, RNA and Peptide Regulation in Plant Abiotic Stress Responses (2016)
  • Author(s): Motoaki Seki
  • Organizer: The 3rd Plant Genomics Congress Asia
  • Place of Presentation: Kuala Lumpur, Malaysia
  • Int'l Joint Research / Invited
• [Presentation] Novel Epigenetic, RNA and Peptide Regulation in Plant Abiotic Stress Responses (2016)
  • Author(s): Jong-Myong Kim, Akihiro Matsui, Kentaro Nakaminami, Kaori Sako, Minoru Ueda ,Taiko Kim To, Huong Mai Nguyen, Khurram Bashir, Sultana Rasheed, Junko Ishida, Maho Tanaka, Minoru Yoshida, Masanori Okamoto, Kousuke Hanada, Sachihiro Matsunaga, Yoshiki Habu and Motoaki Seki
  • Organizer: The 22nd International Conference on Plant Growth Substances (IPGSA)
  • Place of Presentation: Toronto, Canada
  • Int'l Joint Research / Invited
• [Presentation] Novel Epigenetic, RNA and Peptide Regulation in Plant Abiotic Stress Responses (2016)
  • Author(s): Jong-Myong Kim, Akihiro Matsui, Kentaro Nakaminami, Kaori Sako, Minoru Ueda, Taiko Kim To, Huong Mai Nguyen, Khurram Bashir , Sultana Rasheed, Junko Ishida, Maho Tanaka, Minoru Yoshida, Masanori Okamoto, Kousuke Hanada, Sachihiro Matsunaga, Yoshiki Habu and Motoaki Seki
  • Organizer: The 27th International Conference on Arabidopsis research (ICAR2016)
  • Place of Presentation: Gyeongju, Korea
  • Int'l Joint Research / Invited
• [Presentation] Control of RNA degradation and stability functions in plant abiotic stress responses (2016)
  • Author(s): Akihiro Matsui, Kentaro Nakaminami, Maho Tanaka, Junko Ishida, Cam Chau Thi Nguyen, Anh Hai Nguyen and Motoaki Seki
  • Organizer: Post-transcriptional Gene Regulation in Plants, A Satellite Meeting of Plant Biology 2016
  • Place of Presentation: Austin, USA
  • Int'l Joint Research / Invited
• [Presentation] Nobel epigenetic, RNA and peptide regulation in plant abiotic stress responses (2016)
  • Author(s): Motoaki Seki, Jong-Myong Kim、Akihiro Matsui、Kentaro Nakaminami、Kaori Sako、Minoru Ueda、Taiko Kim To、Huong Mai Nguyen、Khurram Bashir、Sultana Rasheed、Junko Ishida、Maho Tanaka、Minoru Yoshida、Masanori Okamoto、Kousuke Hanada、Yoshiki Habu, Sachihiro Matsunaga
  • Organizer: Cold Spring Harbor Asia Conferences 2016
  • Place of Presentation: The Westin Resort and Conference Center Awaji Island、Hyogo、Japan
  • Int'l Joint Research / Invited
• [Presentation] Transcriptomic Changes are Differentially Regulated in Roots and Shoots of soil-Grown Arabidopsis thaliana plants in Response to a Drought Stress (2016)
  • Author(s): Sultana Rasheed, Khurram Bashir, Akihiro Matsui, Maho Tanaka, Motoaki Seki
  • Organizer: The 27th International Conference on Arabidopsis research (ICAR2016)
  • Place of Presentation: Gyeongju, Korea
  • Int'l Joint Research
• [Presentation] Novel stress-inducible antisense RNAs of protein-coding loci are synthesized by Arabidopsis RDRs (2016)
  • Author(s): Akihiro Matsui, Kei Iida, Maho Tanaka, Katsushi Yamaguchi, Kayoko Mizuhashi, Jong-Myong Kim, Norio Kobayashi, Shuji Shigenobu, Kazuo Shinozaki, Tetsuro Toyoda, and Motoaki Seki
  • Organizer: Cold Spring Harbor Asia Conferences 2016
  • Place of Presentation: The Westin Resort and Conference Center Awaji Island、Hyogo、Japan
  • Int'l Joint Research
• [Book] Salinity Responses and Tolerance in Plants, Volume 2: Exploring RNAi, Genome Editing and Systems Biology (2018)
  • Author(s): Ueda, M., Sako, K. and Seki, M.
  • Publisher: Springer
• [Book] Survival Strategies in Extreme Cold and Desiccation: Adaptation Mechanisms and their Applications. Series of Advances in Experimental Medicine and Biology (2018)
  • Author(s): Nakaminami, K. and Seki, M.
  • Publisher: Springer Japan
• [Book] In "Methods in Molecular Biology - Root Development - (Edited by Drs. Elke Barbez and Daniela Ristova)". (2017)
  • Author(s): Bashir, K., Rasheed, S., Matsui, A., Iida, K., Tanaka, M. and Seki, M.
  • Publisher: Springer
• [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