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High throughput technique for measuring specific enzyme activities of a metabolic pathway

Research Project

Project/Area Number 18K04850
Research Category

Grant-in-Aid for Scientific Research (C)

Allocation TypeMulti-year Fund
Section一般
Review Section Basic Section 27040:Biofunction and bioprocess engineering-related
Research InstitutionOsaka University

Principal Investigator

Toya Yoshihiro  大阪大学, 情報科学研究科, 准教授 (70582162)

Project Period (FY) 2018-04-01 – 2021-03-31
Project Status Completed (Fiscal Year 2020)
Budget Amount *help
¥4,420,000 (Direct Cost: ¥3,400,000、Indirect Cost: ¥1,020,000)
Fiscal Year 2020: ¥1,300,000 (Direct Cost: ¥1,000,000、Indirect Cost: ¥300,000)
Fiscal Year 2019: ¥1,950,000 (Direct Cost: ¥1,500,000、Indirect Cost: ¥450,000)
Fiscal Year 2018: ¥1,170,000 (Direct Cost: ¥900,000、Indirect Cost: ¥270,000)
Keywords代謝経路 / 律速反応 / 酵素活性 / 反応速度論モデル / 代謝制御解析 / 代謝工学 / 解糖系 / 大腸菌 / フェノール / 酵素比活性 / 中心炭素代謝経路
Outline of Final Research Achievements

In the field of bio-productions, identification of a rate-limiting step in the metabolic pathways is one of the important issues for enhancing the productivity. Although the maximum enzyme activity (Vmax) provides a clue for the identification, measuring the Vmax values of many reactions at once is a time-consuming task. Here, I developed a high-throughput method for simultaneously estimating the Vmax of the enzymes in a pathway using a time-course data of intermediate concentrations obtained from an in vitro experiment. The Vmax values of reactions in glycolysis of Escherichia coli were estimated with this protocol. Metabolic control analysis using the estimated Vmax values revealed a rate-limiting step. The validity was confirmed by additional in vitro and in vivo experiments.

Academic Significance and Societal Importance of the Research Achievements

細胞内における代謝の仕組みを理解するために,これまで様々な方法が開発されてきた.なかでも代謝フラックス解析は,代謝経路の流れ (フラックス) を明らかにすることで,代謝の実態を評価するための方法として広く用いられてきた.一方で,なぜその代謝状態だったのかは,フラックスだけを見ているだけではわからなかった.本研究で推定が可能になった各酵素反応の最大反応速度 (Vmax) と実際のフラックスを比較することで,どの反応が酵素量レベルでの制限を受けているのか明らかにできる.また,代謝経路中でどの反応が経路全体のフラックスに強く影響するか詳細な仕組みを解明できるようになる.

Report

(4 results)
  • 2020 Annual Research Report   Final Research Report ( PDF )
  • 2019 Research-status Report
  • 2018 Research-status Report
  • Research Products

    (17 results)

All 2021 2020 2019 2018

All Journal Article (7 results) (of which Peer Reviewed: 7 results,  Open Access: 1 results) Presentation (10 results) (of which Int'l Joint Research: 1 results,  Invited: 3 results)

  • [Journal Article] Identification of a rate-limiting step in a metabolic pathway using the kinetic model and in?vitro experiment2021

    • Author(s)
      Kitamura Sayaka、Shimizu Hiroshi、Toya Yoshihiro
    • Journal Title

      Journal of Bioscience and Bioengineering

      Volume: 131 Issue: 3 Pages: 271-276

    • DOI

      10.1016/j.jbiosc.2020.10.008

    • NAID

      40022515098

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Transcription Factor ArcA is a Flux Sensor for the Oxygen Consumption Rate inEscherichia coli2020

    • Author(s)
      Nochino Naoya、Toya Yoshihiro、Shimizu Hiroshi
    • Journal Title

      Biotechnology Journal

      Volume: 15 Issue: 6 Pages: 1900353-1900353

    • DOI

      10.1002/biot.201900353

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Light‐inducible flux control of triosephosphate isomerase on glycolysis in Escherichia coli2019

    • Author(s)
      Senoo Sachie、Tandar Sebastian Tommi、Kitamura Sayaka、Toya Yoshihiro、Shimizu Hiroshi
    • Journal Title

      Biotechnology and Bioengineering

      Volume: 116 Issue: 12 Pages: 3292-3300

    • DOI

      10.1002/bit.27148

    • Related Report
      2019 Research-status Report
    • Peer Reviewed
  • [Journal Article] 13C-Metabolic flux analysis reveals effect of phenol on central carbon metabolism in Escherichia coli2019

    • Author(s)
      Kitamura Sayaka、Toya Yoshihiro、Shimizu Hiroshi
    • Journal Title

      Frontiers in Microbiology

      Volume: 10 Pages: 1010-1010

    • DOI

      10.3389/fmicb.2019.01010

    • Related Report
      2019 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] Optogenetic switch for controlling the central metabolic flux of Escherichia coli2019

    • Author(s)
      Tandar Sebastian Tommi、Senoo Sachie、Toya Yoshihiro、Shimizu Hiroshi
    • Journal Title

      Metabolic Engineering

      Volume: 55 Pages: 68-75

    • DOI

      10.1016/j.ymben.2019.06.002

    • Related Report
      2019 Research-status Report
    • Peer Reviewed
  • [Journal Article] Effect of precise control of flux ratio between the glycolytic pathways on mevalonate production in Escherichia coli.2019

    • Author(s)
      Kentaro Kamata, Yoshihiro Toya, Hiroshi Shimizu
    • Journal Title

      Biotechnology and Bioengineering

      Volume: 116 Issue: 5 Pages: 1080-1080

    • DOI

      10.1002/bit.26923

    • Related Report
      2019 Research-status Report 2018 Research-status Report
    • Peer Reviewed
  • [Journal Article] Theophylline-inducible riboswitch accurately regulates protein expression at low level in Escherichia coli.2019

    • Author(s)
      Rikuto Kamiura, Yoshihiro Toya, Fumio Matsuda, Hiroshi Shimizu
    • Journal Title

      Biotechnology Letters

      Volume: 印刷中 Issue: 6-7 Pages: 743-751

    • DOI

      10.1007/s10529-019-02672-8

    • Related Report
      2018 Research-status Report
    • Peer Reviewed
  • [Presentation] 微生物の中枢代謝経路フラックスを制御するための技術2021

    • Author(s)
      戸谷 吉博
    • Organizer
      関西スマートセルフォーラム2021
    • Related Report
      2020 Annual Research Report
    • Invited
  • [Presentation] 蛍光タンパク質を利用した共培養のための菌体比率 制御技術の開発2021

    • Author(s)
      楠田 みのり、戸谷 吉博、清水 浩
    • Organizer
      化学工学会第86年会
    • Related Report
      2020 Annual Research Report
  • [Presentation] 試験管内反応系を利用した代謝経路の律速段階の同定2020

    • Author(s)
      北村 さや香、戸谷 吉博、清水 浩
    • Organizer
      化学工学会第51回秋季大会
    • Related Report
      2020 Annual Research Report
  • [Presentation] フラックスバランス解析を利用した増殖連動型物質生産のための代謝設計とその応用2020

    • Author(s)
      戸谷 吉博
    • Organizer
      2020年日本バイオインフォマティクス学会年会・第9回生命医薬情報学連合大会(IIBMP2020)
    • Related Report
      2020 Annual Research Report
    • Invited
  • [Presentation] 光誘導スイッチを利用した代謝フラックスの動的な調節技術の開発2020

    • Author(s)
      塚本 雅士、戸谷 吉博、清水 浩
    • Organizer
      化学工学会第51回秋季大会
    • Related Report
      2020 Annual Research Report
  • [Presentation] 代謝経路の動的モデルを使ったin vitroの酵素反応系による複数酵素Vmaxの予測2020

    • Author(s)
      北村 さや香、戸谷 吉博、清水 浩
    • Organizer
      日本農芸化学会2020年度大会
    • Related Report
      2019 Research-status Report
  • [Presentation] High-throughput measurement method for multiple enzyme specific activities using a kinetic model2019

    • Author(s)
      Kitamura Sayaka、Toya Yoshihiro、Shimizu Hiroshi
    • Organizer
      APCChE 2019
    • Related Report
      2019 Research-status Report
    • Int'l Joint Research
  • [Presentation] フェノールが大腸菌の中枢代謝に及ぼす影響の解析2018

    • Author(s)
      北村 さや香, 戸谷 吉博, 清水 浩
    • Organizer
      第70回日本生物工学会大会
    • Related Report
      2018 Research-status Report
  • [Presentation] 大腸菌の代謝経路のフラックス比が物質生産に及ぼす影響2018

    • Author(s)
      戸谷 吉博, 鎌田 健太郎, 妹尾 幸枝, TANDAR SEBASTIAN TOMMI, 清水 浩
    • Organizer
      第12回メタボロームシンポジウム
    • Related Report
      2018 Research-status Report
    • Invited
  • [Presentation] 大腸菌中枢代謝経路のフラックス制御が物質生産に及ぼす影響の解析2018

    • Author(s)
      鎌田 健太郎, 戸谷 吉博, 清水 浩
    • Organizer
      化学工学会第50回秋季大会
    • Related Report
      2018 Research-status Report

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Published: 2018-04-23   Modified: 2022-01-27  

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