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Analysis of bacteria in a fluctuating environment at the single-cell level

Research Project

Project/Area Number 24710228
Research Category

Grant-in-Aid for Young Scientists (B)

Allocation TypeMulti-year Fund
Research Field System genome science
Research InstitutionOsaka University

Principal Investigator

TSURU Saburo  大阪大学, 情報科学研究科, 助教 (80594506)

Project Period (FY) 2012-04-01 – 2014-03-31
Project Status Completed (Fiscal Year 2013)
Budget Amount *help
¥3,640,000 (Direct Cost: ¥2,800,000、Indirect Cost: ¥840,000)
Fiscal Year 2013: ¥1,820,000 (Direct Cost: ¥1,400,000、Indirect Cost: ¥420,000)
Fiscal Year 2012: ¥1,820,000 (Direct Cost: ¥1,400,000、Indirect Cost: ¥420,000)
Keywords一細胞観察 / 遺伝子発現の確率性 / マイクロ流路 / 遺伝子発現ノイズ / 微細加工 / 遺伝子発現 / バクテリア / 環境適応
Research Abstract

We tried to construct a tiny chamber which enables rapid medium replacement under microscope to observe living cells at the single-cell level in real time. This micro chamber consists two parts: a small room for cell growth without washout from the fluid; a channel providing various concentrations of medium to the room by oscillating flow speeds of multiple inlets. Using fluorescent beads and pigment in the medium, we measured the speed of medium replacement in the room. As a result, the chamber replaced the medium in the room within 10 sec, less than half time of our expectation. Subsequently, the bacterial cells producing fluorescence proteins were loaded to the chamber and proliferated in the room by feeding the fresh medium. The protein concentrations fluctuated overtime accompanied with cell growth and varied among isogenic sister cells as a consequence. Thus, the micro chamber with rapid medium replacement revealed the cellular individuality even in the constant environment.

Report

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

    (19 results)

All 2014 2013 2012

All Journal Article (4 results) (of which Peer Reviewed: 2 results) Presentation (15 results)

  • [Journal Article] Gene expression scaled by distance to the genome replication site2014

    • Author(s)
      Bei-Wen Ying, Saburo Tsuru, Shigeto Seno, Hideo Matsudab, Tetsuya Yomo.
    • Journal Title

      Mol. BioSyst

      Volume: 10 Pages: 375-379

    • Related Report
      2013 Final Research Report
  • [Journal Article] Gene expression scaled by distance to the genome replication site.2014

    • Author(s)
      Bei-Wen Ying, Saburo Tsuru, Shigeto Seno, Hideo Matsudab, Tetsuya Yomo.
    • Journal Title

      Mol. BioSyst., 2014

      Volume: 10 Issue: 3 Pages: 375-379

    • DOI

      10.1039/c3mb70254e

    • Related Report
      2013 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Growth rate-coordinated transcript- ome reorganization in bacteria2013

    • Author(s)
      Yuki Matsumoto, Yoshie Murakami, Saburo Tsuru, Bei-Wen Ying, Tetsuya Yomo.
    • Journal Title

      BMC Genomics

      Volume: 14 Pages: 1-10

    • NAID

      120007130585

    • Related Report
      2013 Final Research Report
  • [Journal Article] Growth rate-coordinated transcriptome reorganization in bacteria2013

    • Author(s)
      Matsumoto, Y., Murakami, Y., Tsuru, S., Ying, B., Yomo, T
    • Journal Title

      BMC Genomics 2013

      Volume: 14 Issue: 1 Pages: 1-10

    • DOI

      10.1186/1471-2164-14-808

    • NAID

      120007130585

    • Related Report
      2013 Annual Research Report
    • Peer Reviewed
  • [Presentation] Growth rate dependent effect on gene expression under environmental perturbation2013

    • Author(s)
      Yuki Matsumoto, Yoshie Murakami, Saburo Tsuru, Bei-Wen Ying, Tetsuya Yomo.
    • Organizer
      International Workshop on Quantitative Biology 2013 (IWQB2013)
    • Place of Presentation
      Icho-kaikan, Suita Campus Osaka University
    • Year and Date
      2013-11-25
    • Related Report
      2013 Final Research Report
  • [Presentation] ゲノム再編大腸菌における表現型及び全遺伝子発現の変化と適応2013

    • Author(s)
      村上由衣, 松本悠希, 津留三良, Ying Bei-wen, 四方哲也
    • Organizer
      第36回日本分子生物学会年会
    • Place of Presentation
      神戸ポートアイランド
    • Related Report
      2013 Annual Research Report 2013 Final Research Report
  • [Presentation] Growth rate dependent effect on gene expression under environmental perturbation.2013

    • Author(s)
      Yuki Matsumoto, Yoshie Murakami, Saburo Tsuru, Bei-Wen Ying, Tetsuya Yomo.
    • Organizer
      International Workshop on Quantitative Biology 2013(IWQB2013)
    • Place of Presentation
      Icho-kaikan, Suita Campus Osaka University
    • Related Report
      2013 Annual Research Report
  • [Presentation] Disturbing native regulations by a synthetic promoter reduced the noise in gene expression2012

    • Author(s)
      Bei-Wen Ying, Saburo Tsuru, Tetsuya Yomo
    • Organizer
      COLD SPRING HARBOR ASIA CONFERENCE Synthetic Biology
    • Place of Presentation
      Suzhou Dushu Lake Conference Center, China
    • Related Report
      2013 Final Research Report
  • [Presentation] Reduced noise in gene expression caused by a replaced foreign promoter2012

    • Author(s)
      應蓓文, 津留三良, 瀬尾茂人, 松田秀雄, 四方哲也
    • Organizer
      日本進化学会第14回東京大会
    • Place of Presentation
      首都大学東京南大沢キャンパス
    • Related Report
      2013 Final Research Report
  • [Presentation] Growth rate correlated genome-wide gene expression pattern in E. coli2012

    • Author(s)
      松本悠希, 津留三良, インベイウェン, 四方哲也
    • Organizer
      第35回日本分子生物学会年会
    • Place of Presentation
      福岡国際会議場・マリンメッセ福岡
    • Related Report
      2013 Final Research Report
  • [Presentation] 遺伝子発現の確率性による環境適応2012

    • Author(s)
      明野優也, 三田弘道, 伊藤洋一郎, 津留三良, 應ベイウェン, 四方哲也
    • Organizer
      第35回日本分子生物学会年会
    • Place of Presentation
      福岡国際会議場・マリンメッセ福岡
    • Related Report
      2013 Final Research Report
  • [Presentation] 大腸菌の増殖抑制におけるストレス因子間の相乗・相殺効果2012

    • Author(s)
      高橋佑輔, 津留三良, 應ベイウェン, 四方哲也
    • Organizer
      第35回日本分子生物学会年会
    • Place of Presentation
      福岡国際会議場・マリンメッセ福岡
    • Related Report
      2013 Final Research Report
  • [Presentation] 確率的環境適応をもたらす遺伝子発現パターンの再編2012

    • Author(s)
      村上由衣, 津留三良, 應ベイウェン, 四方哲也
    • Organizer
      第35回日本分子生物学会年会
    • Place of Presentation
      福岡国際会議場・マリンメッセ福岡
    • Related Report
      2013 Final Research Report
  • [Presentation] Disturbing native regulations by a synthetic promoter reduced the noise in gene expression.2012

    • Author(s)
      Bei-Wen Ying, Saburo Tsuru, Tetsuya Yomo.
    • Organizer
      COLD SPRING HARBOR ASIA CONFERENCE Synthetic Biology
    • Place of Presentation
      Suzhou Dushu Lake Conference Center, China
    • Related Report
      2012 Research-status Report
  • [Presentation] Reduced noise in gene expression caused by a replaced foreign promoter.2012

    • Author(s)
      イン ベイウェン,津留三良,瀬尾茂人,松田秀雄,四方哲也
    • Organizer
      日本進化学会第14回東京大会
    • Place of Presentation
      首都大学東京南大沢キャンパス(東京)
    • Related Report
      2012 Research-status Report
  • [Presentation] Growth rate correlated genome-wide gene expression pattern in E. coli.2012

    • Author(s)
      松本 悠希, 津留三良, インベイウェン, 四方哲也
    • Organizer
      第35回日本分子生物学会年会
    • Place of Presentation
      福岡国際会議場・マリンメッセ福岡(福岡)
    • Related Report
      2012 Research-status Report
  • [Presentation] 遺伝子発現の確率性による環境適応2012

    • Author(s)
      明野優也, 三田弘道, 伊藤洋一郎, 津留三良, 應ベイウェン, 四方哲也
    • Organizer
      第35回日本分子生物学会年会
    • Place of Presentation
      福岡国際会議場・マリンメッセ福岡(福岡)
    • Related Report
      2012 Research-status Report
  • [Presentation] 大腸菌の増殖抑制におけるストレス因子間の相乗・相殺効果2012

    • Author(s)
      高橋佑輔, 津留三良, 應ベイウェン, 四方哲也
    • Organizer
      第35回日本分子生物学会年会
    • Place of Presentation
      福岡国際会議場・マリンメッセ福岡(福岡)
    • Related Report
      2012 Research-status Report
  • [Presentation] 確率的環境適応をもたらす遺伝子発現パターンの再編2012

    • Author(s)
      村上由衣, 津留三良, 應ベイウェン, 四方哲也
    • Organizer
      第35回日本分子生物学会年会
    • Place of Presentation
      福岡国際会議場・マリンメッセ福岡(福岡)
    • Related Report
      2012 Research-status Report

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

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