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Development of a molecule-responsive RNA processing system and its application to an artificial pseudo-riboswitch

Research Project

Project/Area Number 25708027
Research Category

Grant-in-Aid for Young Scientists (A)

Allocation TypePartial Multi-year Fund
Research Field Bio-related chemistry
Research InstitutionEhime University

Principal Investigator

Ogawa Atsushi  愛媛大学, プロテオサイエンスセンター, 准教授 (30442940)

Project Period (FY) 2013-04-01 – 2017-03-31
Project Status Completed (Fiscal Year 2016)
Budget Amount *help
¥19,370,000 (Direct Cost: ¥14,900,000、Indirect Cost: ¥4,470,000)
Fiscal Year 2015: ¥2,860,000 (Direct Cost: ¥2,200,000、Indirect Cost: ¥660,000)
Fiscal Year 2014: ¥4,030,000 (Direct Cost: ¥3,100,000、Indirect Cost: ¥930,000)
Fiscal Year 2013: ¥12,480,000 (Direct Cost: ¥9,600,000、Indirect Cost: ¥2,880,000)
Keywordsリボスイッチ / プロセシング / tRNA / 核酸検出
Outline of Final Research Achievements

We investigated the end processing and degradation of premature tRNAs in a eukaryotic cell extract, which led to the development of a novel type of molecule-responsive gene regulation system called "pseudo-riboswitch" that harnesses the maturation of a premature tRNA probe for a target molecule. This system has the advantage not only in being able to be rationally constructed to respond to an arbitrary molecule but also in generally exhibiting higher switching efficiency than previously reported artificial gene regulation systems, by virtue of its unique mechanism. In addition, we modified this pseudo-riboswitch system to develop biosensors for detecting nucleic acids with high sensitivity and specificity. Moreover, we rationally optimized a tRNA probe framework for introducing a non-natural amino acid into a protein. We also identified an untranslated region of mRNA that enhances translation in the ON state.

Report

(5 results)
  • 2016 Annual Research Report   Final Research Report ( PDF )
  • 2015 Annual Research Report
  • 2014 Annual Research Report
  • 2013 Annual Research Report
  • Research Products

    (27 results)

All 2016 2015 2014 2013 Other

All Journal Article (6 results) (of which Peer Reviewed: 5 results,  Acknowledgement Compliant: 6 results,  Open Access: 3 results) Presentation (18 results) (of which Int'l Joint Research: 2 results,  Invited: 3 results) Remarks (3 results)

  • [Journal Article] Biofunction-assisted DNA detection through RNase H-enhanced 3' processing of a premature tRNA probe in a wheat germ extract2016

    • Author(s)
      Atsushi Ogawa, Junichiro Tabuchi, Yasunori Doi, Masashi Takamatsu
    • Journal Title

      Bioorg. Med. Chem. Lett.

      Volume: 26 Issue: 15 Pages: 3658-3661

    • DOI

      10.1016/j.bmcl.2016.05.091

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] Rational optimization of amber suppressor tRNAs toward efficient incorporation of a non-natural amino acid into protein in a eukaryotic wheat germ extract2016

    • Author(s)
      Atsushi Ogawa,* Yuki Namba, Mai Gakumasawa
    • Journal Title

      Org. Biomol. Chem.

      Volume: 14 Issue: 9 Pages: 2671-2678

    • DOI

      10.1039/c5ob02533h

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] Biofunction-assisted aptasensors based on ligand-dependent 3’ processing of a suppressor tRNA in a wheat germ extract2015

    • Author(s)
      Atsushi Ogawa,* Junichiro Tabuchi
    • Journal Title

      Org. Biomol. Chem.

      Volume: 13 Issue: 24 Pages: 6681-6685

    • DOI

      10.1039/c5ob00794a

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] Investigation of end processing and degradation of premature tRNAs and their application to stabilization of in vitro transcripts in wheat germ extract2015

    • Author(s)
      Atsushi Ogawa,* Yasunori Doi
    • Journal Title

      Org. Biomol. Chem.

      Volume: 13 Issue: 4 Pages: 1008-1012

    • DOI

      10.1039/c4ob02221a

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed / Open Access / Acknowledgement Compliant
  • [Journal Article] Engineering of Ribosomal Shunt-Modulating Eukaryotic ON Riboswitches by Using a Cell-Free Translation System2015

    • Author(s)
      Atsushi Ogawa*
    • Journal Title

      Methods Enzymol.

      Volume: 550 Pages: 109-128

    • DOI

      10.1016/bs.mie.2014.10.033

    • Related Report
      2014 Annual Research Report
    • Open Access / Acknowledgement Compliant
  • [Journal Article] Identification of short untranslated regions that sufficiently enhance translation in high-quality wheat germ extract2014

    • Author(s)
      Atsushi Ogawa,* Junichiro Tabuchi, Yasunori Doi
    • Journal Title

      Bioorg. Med. Chem. Lett.

      Volume: 24 Issue: 16 Pages: 3724-3727

    • DOI

      10.1016/j.bmcl.2014.07.004

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed / Open Access / Acknowledgement Compliant
  • [Presentation] 人工リボスイッチを基盤とした葉緑体遺伝子発現誘導系2016

    • Author(s)
      中平 洋一、山根 里佳、小川 敦司、戸澤 譲、椎名 隆
    • Organizer
      第39回日本分子生物学会年会
    • Place of Presentation
      パシフィコ横浜(神奈川県・横浜市)
    • Year and Date
      2016-11-30
    • Related Report
      2016 Annual Research Report
  • [Presentation] 人工リボスイッチを用いたタバコ葉緑体遺伝子発現誘導系2016

    • Author(s)
      中平 洋一、小川 敦司、戸澤 譲、椎名 隆
    • Organizer
      第34回日本植物細胞分子生物学会
    • Place of Presentation
      信州大学(長野県・上田市)
    • Year and Date
      2016-09-01
    • Related Report
      2016 Annual Research Report
  • [Presentation] Utilization of the theophylline-dependent engineered riboswitches for strict control of plastid gene expression in tobacco2016

    • Author(s)
      中平洋一、小川敦司、戸澤譲、椎名隆
    • Organizer
      第57回植物生理学会年会
    • 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
  • [Presentation] 省エネ型真核リボスイッチの設計2016

    • Author(s)
      小川 敦司
    • Organizer
      新世代の生物有機化学研究会2016
    • Place of Presentation
      愛媛大学(愛媛県・松山市)
    • Related Report
      2016 Annual Research Report
  • [Presentation] Rational engineering of ribosomal shunt-modulating eukaryotic ON-riboswitches2015

    • Author(s)
      Atsushi Ogawa
    • Organizer
      Pacifichem 2015
    • Place of Presentation
      Convention Center (USA, Hawaii, Honolulu)
    • Year and Date
      2015-12-19
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Riboswitch制御でのシアノファージ由来Sigma factorによるシアノバクテリアの糖代謝改変2015

    • Author(s)
      沢稔彦、小川敦司、田附常幸、廣川安孝、小山内崇、花井泰三
    • Organizer
      第22回日本生物工学会九州支部宮崎大会
    • Place of Presentation
      宮崎大学(宮崎県・宮崎市)
    • Year and Date
      2015-12-05
    • Related Report
      2015 Annual Research Report
  • [Presentation] コムギ胚芽抽出液中におけるtRNA 末端processingを利用したaptamer基盤センサー(aptasensor)の開発2015

    • Author(s)
      田渕潤一郎、小川敦司
    • Organizer
      第38回日本分子生物学会・第88回日本生化学会合同年会(BMB2015)
    • Place of Presentation
      神戸ポートアイランド(兵庫県・神戸市)
    • Year and Date
      2015-12-01
    • Related Report
      2015 Annual Research Report
  • [Presentation] Biofunction-assisted aptasensors based on ligand-dependent 3' processing of a suppressor tRNA in a wheat germ extract2015

    • Author(s)
      Junichiro Tabuchi and Atsushi Ogawa
    • Organizer
      Protein Island Matsuyama International Symposium 2015
    • Place of Presentation
      Ehime University (Ehime, Matsuyama)
    • Year and Date
      2015-09-25
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research
  • [Presentation] RNAプロセシングを利用したシュードリボスイッチの開発2015

    • Author(s)
      小川敦司
    • Organizer
      新世代の生物有機化学研究会2015
    • Place of Presentation
      東京大学(東京都・文京区)
    • Year and Date
      2015-06-27
    • Related Report
      2015 Annual Research Report
  • [Presentation] Identification of short untranslated regions that sufficiently enhance translation in wheat germ extract2014

    • Author(s)
      Junichiro Tabuchi, Yasunori Doi, and Atsushi Ogawa
    • Organizer
      Protein Island Matsuyama International Symposium 2014
    • Place of Presentation
      Ehime University (Ehime, Matsuyama)
    • Year and Date
      2014-09-17
    • Related Report
      2014 Annual Research Report
  • [Presentation] Hybridization switch-freeの真核系ONリボスイッチを創る2014

    • Author(s)
      小川敦司
    • Organizer
      第8回バイオ関連化学シンポジウム
    • Place of Presentation
      岡山大学(岡山県・岡山市)
    • Year and Date
      2014-09-11
    • Related Report
      2014 Annual Research Report
  • [Presentation] コムギ胚芽抽出液中で高い翻訳促進効果を発揮する短い非翻訳領域2014

    • Author(s)
      田渕潤一郎、土居靖典、小川敦司
    • Organizer
      第8回バイオ関連化学シンポジウム
    • Place of Presentation
      岡山大学(岡山県・岡山市)
    • Year and Date
      2014-09-11
    • Related Report
      2014 Annual Research Report
  • [Presentation] 分子応答性RNAプロセシングシステムの開発2014

    • Author(s)
      小川敦司
    • Organizer
      新世代の生物有機化学研究会2014
    • Place of Presentation
      東京大学(東京都・目黒区)
    • Year and Date
      2014-06-21
    • Related Report
      2014 Annual Research Report
  • [Presentation] 小麦胚芽無細胞翻訳システムを利用した真核系人工リボスイッチの開発2014

    • Author(s)
      小川敦司
    • Organizer
      第1回合成生物学研究部会セミナー
    • Place of Presentation
      松山
    • Related Report
      2013 Annual Research Report
    • Invited
  • [Presentation] 無細胞翻訳システムを利用した真核系人工リボスイッチの開発2013

    • Author(s)
      小川敦司
    • Organizer
      第190回応用化学セミナー
    • Place of Presentation
      松山
    • Related Report
      2013 Annual Research Report
    • Invited
  • [Presentation] コムギ無細胞システムを利用した真核リボスイッチの合理設計2013

    • Author(s)
      小川敦司
    • Organizer
      第15回日本RNA学会年会
    • Place of Presentation
      松山
    • Related Report
      2013 Annual Research Report
    • Invited
  • [Presentation] Assessment and Applications of tRNA processing in Wheat Germ Extract by Using a Nonsense Suppression System2013

    • Author(s)
      Doi Y., Ogawa A
    • Organizer
      Protein Island Matsuyama International Symposium 2013
    • Place of Presentation
      Matsuyama
    • Related Report
      2013 Annual Research Report
  • [Presentation] t-Riboregulator: Regulation of Nonsense Suppression by Modulating 3' Processing of Suppressor tRNA2013

    • Author(s)
      Doi Y., Ogawa A
    • Organizer
      CBI Annual Meeting 2013
    • Place of Presentation
      Tokyo
    • Related Report
      2013 Annual Research Report
  • [Remarks] 愛媛大学 小川研究室

    • URL

      http://www.pros.ehime-u.ac.jp/ogawa/

    • Related Report
      2016 Annual Research Report
  • [Remarks] 小川研究室:Ogawa Lab

    • URL

      http://www.pros.ehime-u.ac.jp/ogawa/

    • Related Report
      2015 Annual Research Report 2014 Annual Research Report
  • [Remarks] 小川研究室:Ogawa Lab

    • URL

      http://www.pros.ehime-u.ac.jp/ogawa/

    • Related Report
      2013 Annual Research Report

URL: 

Published: 2013-05-21   Modified: 2019-07-29  

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