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Analysis of antibiotic resistance evolution by laboratory evolution

Research Project

Project/Area Number 26290071
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypePartial Multi-year Fund
Section一般
Research Field System genome science
Research InstitutionInstitute of Physical and Chemical Research

Principal Investigator

Furusawa Chikara  国立研究開発法人理化学研究所, 生命システム研究センター, チームリーダー (00372631)

Co-Investigator(Kenkyū-buntansha) 堀之内 貴明  国立研究開発法人理化学研究所, 生命システム研究センター, 特別研究員 (60610988)
Project Period (FY) 2014-04-01 – 2017-03-31
Project Status Completed (Fiscal Year 2016)
Budget Amount *help
¥17,420,000 (Direct Cost: ¥13,400,000、Indirect Cost: ¥4,020,000)
Fiscal Year 2016: ¥5,330,000 (Direct Cost: ¥4,100,000、Indirect Cost: ¥1,230,000)
Fiscal Year 2015: ¥5,720,000 (Direct Cost: ¥4,400,000、Indirect Cost: ¥1,320,000)
Fiscal Year 2014: ¥6,370,000 (Direct Cost: ¥4,900,000、Indirect Cost: ¥1,470,000)
Keywords進化実験 / 抗生物質耐性 / 大腸菌 / 抗生物質 / 次世代シーケンサ
Outline of Final Research Achievements

The emergence of multidrug-resistant bacteria is a growing concern for global public health. To suppress the emergence of antibiotic resistant bacteria, it is important to understand its evolutionary dynamics. In this study, we performed laboratory evolution of Escherichia coli under addition of two antibiotics and analyzed its evolutionary dynamics. As a result, we identified drug combinations by which resistance acquisition was suppressed and accelerated. In addition, to screen stress environment which can cause suppression or acceleration of drug-resistant evolution, we performed laboratory evolution of E. coli under various stress conditions, including an addition of acid, alkali, and so forth. As results, we successfully identified some candidate for the suppression of drug resistance evolution. These results provide the basis for controlling antibiotic resistance evolution.

Report

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

    (43 results)

All 2017 2016 2015 2014

All Journal Article (10 results) (of which Peer Reviewed: 10 results,  Open Access: 7 results,  Acknowledgement Compliant: 3 results) Presentation (30 results) (of which Int'l Joint Research: 8 results,  Invited: 21 results) Book (3 results)

  • [Journal Article] Omics-Integrated Approach for Metabolic State Analysis of Microbial Processes: Innovations and Future Directions2017

    • Author(s)
      H. Shimizu, C. Furusawa, T. Hirasawa, K. Yoshikawa, Y. Toya, T. Shirai and F. Matsuda
    • Journal Title

      Appl. Bioeng

      Volume: 5 Pages: 213-236

    • DOI

      10.1002/9783527800599.ch7

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Expression profiling of antibiotic resistant bacteria obtained by laboratory evolution2017

    • Author(s)
      S. Suzuki, T. Horinouchi and C. Furusawa
    • Journal Title

      Methods Mol Biol.

      Volume: 1520 Pages: 263-279

    • DOI

      10.1007/978-1-4939-6634-9_16

    • ISBN
      9781493966325, 9781493966349
    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Acceleration and Suppression of Resistance Development by Antibiotic Combinations2017

    • Author(s)
      S. Suzuki, T. Horinouchi and C. Furusawa
    • Journal Title

      BMC Genomics

      Volume: 18 Issue: 1 Pages: 328-328

    • DOI

      10.1186/s12864-017-3718-2

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed
  • [Journal Article] 進化実験を用いた薬剤耐性メカニズムの解析2017

    • Author(s)
      古澤力
    • Journal Title

      薬学雑誌

      Volume: 137(4) Pages: 373-376

    • NAID

      130005529539

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Phenotypic changes associated with the fitness cost in antibiotic resistant Escherichia coli strains2016

    • Author(s)
      Shingo Suzuki, Takaaki Horinouchi, Chikara Furusawa
    • Journal Title

      Molecular Biosystems

      Volume: Vol.12  No.2 Issue: 2 Pages: 414-420

    • DOI

      10.1039/c5mb00590f

    • Related Report
      2016 Annual Research Report 2015 Annual Research Report
    • Peer Reviewed / Open Access / Acknowledgement Compliant
  • [Journal Article] 大腸菌進化実験を用いた遺伝子発現量からの抗生物質耐性メカニズムの解析2016

    • Author(s)
      古澤力,鈴木真吾,堀之内貴明
    • Journal Title

      バイオサイエンスとインダストリー

      Volume: 74(2) Pages: 138-140

    • NAID

      40020762041

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Bacterial transcriptome reorganization in thermal adaptive evolution2015

    • Author(s)
      B-W. Ying, Y. Matsumoto, K. Kitahara, S. Suzuki, N. Ono, C. Furusawa, T. Kishimoto, T. Yomo
    • Journal Title

      BMC Genomics

      Volume: 16 Issue: 1 Pages: 1-11

    • DOI

      10.1186/s12864-015-1999-x

    • NAID

      120007136181

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Phenotypic convergence in bacterial adaptive evolution to ethanol stress2015

    • Author(s)
      Takaaki Horinouchi, Shingo Suzuki, Takashi Hirasawa, Naoaki Ono, Tetsuya Yomo, Hiroshi Shizmiu, Chikara Furusawa
    • Journal Title

      BMC Evo. Biol.

      Volume: 15 Issue: 1 Pages: 180-180

    • DOI

      10.1186/s12862-015-0454-6

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Global relationships in fluctuation and response in adaptive evolution2015

    • Author(s)
      Chikara Furusawa and Kunihiko Kaneko
    • Journal Title

      Jour. Roy. Soc. Interfac

      Volume: Vol.12 No.109 Issue: 109 Pages: 20150482-20150482

    • DOI

      10.1098/rsif.2015.0482

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Open Access / Acknowledgement Compliant
  • [Journal Article] Suppression of antibiotic resistance acquisition by combined use of antibiotics2015

    • Author(s)
      S. Suzuki, T. Horinouchi, C. Furusawa
    • Journal Title

      Jour. Biosci. Bioeng

      Volume: - Issue: 4 Pages: 467-469

    • DOI

      10.1016/j.jbiosc.2015.02.003

    • NAID

      110010010232

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed / Open Access / Acknowledgement Compliant
  • [Presentation] Toward Understanding of Adaptive Evolution: Theoretical Analysis and Microbial Laboratory Evolution2017

    • Author(s)
      Chikara Furusawa
    • Organizer
      5th International Symposium of the Mathematics on Chromatin Live Dynamics
    • Place of Presentation
      東広島芸術文化ホール(広島県東広島市)
    • Related Report
      2016 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Prediction of Stress Resistance By Gene Expression Profiles2016

    • Author(s)
      Chikara Furusawa, Shingo Suzuki, Takaaki Horinouchi
    • Organizer
      Metabolic Engineering XI
    • Place of Presentation
      淡路夢舞台国際会議場(兵庫県淡路市)
    • Related Report
      2016 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Toward Understanding of Biological Plasticity:Computational Analysis and Experimental Evolution2016

    • Author(s)
      Chikara Furusawa
    • Organizer
      QBiC Symposium 2016
    • Place of Presentation
      千里ライフサイエンスセンター(大阪府豊中市)
    • Related Report
      2016 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Escherichia coli cellular state profiling during adaptive evolution to various stress conditions using omics technology2016

    • Author(s)
      Takaaki Horinouchi, Tomoya Maeda, Chikara Furusawa
    • Organizer
      QBiC Symposium 2016
    • Place of Presentation
      千里ライフサイエンスセンター(大阪府豊中市)
    • Related Report
      2016 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Analysis of evolutionary constraints and plasticity by laboratory evolution and computational models2016

    • Author(s)
      Chikara Furusawa
    • Organizer
      Genome Evolution Conference
    • Place of Presentation
      Rehovot(Israel)
    • Related Report
      2016 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Toward Understanding of Adaptive Evolution: High-throughput Laboratory Evolution and Computational Analysis2016

    • Author(s)
      Chikara Furusawa
    • Organizer
      International Symposium on Universal Biology
    • Place of Presentation
      東京大学(東京都文京区)
    • Related Report
      2016 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] ハイスループット実験室進化とオミックス解析によるストレス耐性微生物の育種2016

    • Author(s)
      堀之内貴明,古澤力
    • Organizer
      2016年度生物工学若手研究者の集い 夏のセミナー
    • Place of Presentation
      ホテルコンチネンタル府中(東京都府中市)
    • Related Report
      2016 Annual Research Report
  • [Presentation] 実験室進化とオミックス解析によるイソプロパノール耐性大腸菌の育種2016

    • Author(s)
      堀之内貴明,酒井亜希,田辺久美,古澤力
    • Organizer
      第68回日本生物工学会大会
    • Place of Presentation
      富山国際会議場(富山県富山市)
    • Related Report
      2016 Annual Research Report
  • [Presentation] 生物システムの安定性と可塑性: 理論と実験からのアプローチ2015

    • Author(s)
      古澤力
    • Organizer
      第34回 BMIRC研究会
    • Place of Presentation
      九州工業大学 飯塚キャンパス・飯塚市・福岡県
    • Year and Date
      2015-12-10
    • Related Report
      2015 Annual Research Report
    • Invited
  • [Presentation] 全自動実験室進化システムを用いた多系列・多種ストレス環境の実験室進化による大腸菌のストレス適応戦略の解析2015

    • Author(s)
      堀之内貴明
    • Organizer
      第38回日本分子生物学会年会
    • Place of Presentation
      神戸国際会議場・神戸市・兵庫県
    • Year and Date
      2015-12-02
    • Related Report
      2015 Annual Research Report
  • [Presentation] 大腸菌進化実験と 細胞シミュレーションを用いた 適応進化ダイナミクスの解析2015

    • Author(s)
      古澤力
    • Organizer
      第38回日本分子生物学会年会
    • Place of Presentation
      神戸国際会議場・神戸市・兵庫県
    • Year and Date
      2015-12-02
    • Related Report
      2015 Annual Research Report
    • Invited
  • [Presentation] Toward Understanding of Adaptive Evolution:Computational Analysis and Experimental Evolution2015

    • Author(s)
      古澤力
    • Organizer
      平成27年度生命システム理論研究会
    • Place of Presentation
      東京医科歯科大学・文京区・東京都
    • Year and Date
      2015-11-27
    • Related Report
      2015 Annual Research Report
    • Invited
  • [Presentation] 生物システムの安定性と可塑性: 大腸菌進化実験によるアプローチ2015

    • Author(s)
      古澤力
    • Organizer
      山田研究会「生物と非生物をつなぐ」
    • Place of Presentation
      ラフォーレ修善寺・伊豆市・静岡県
    • Year and Date
      2015-11-16
    • Related Report
      2015 Annual Research Report
    • Invited
  • [Presentation] 大腸菌の進化実験を用いた進化ダイナミクスの解析とその応用2015

    • Author(s)
      古澤力
    • Organizer
      第67回日本生物工学大会
    • Place of Presentation
      城山観光ホテル・鹿児島市・鹿児島県
    • Year and Date
      2015-10-28
    • Related Report
      2015 Annual Research Report
    • Invited
  • [Presentation] 全自動実験室進化による様々な化合物ストレスに対する耐性大腸菌の創生と耐性化機構の解析2015

    • Author(s)
      堀之内貴明
    • Organizer
      第67回日本生物工学大会
    • Place of Presentation
      城山観光ホテル・鹿児島市・鹿児島県
    • Year and Date
      2015-10-26
    • Related Report
      2015 Annual Research Report
  • [Presentation] ハイスループット実験室進化とオミックス解析による大腸菌の適応進化の解析2015

    • Author(s)
      堀之内貴明
    • Organizer
      生命情報科学若手の会第7回研究会
    • Place of Presentation
      慶應義塾大学鶴岡タウンキャンパス・鶴岡市・山形県
    • Year and Date
      2015-10-01
    • Related Report
      2015 Annual Research Report
  • [Presentation] 大自由度ダイナミクスから”生きている状態”の記述へ2015

    • Author(s)
      古澤力
    • Organizer
      第53回日本生物物理学会年会
    • Place of Presentation
      金沢大学角間キャンパス・金沢市・石川県
    • Year and Date
      2015-09-13
    • Related Report
      2015 Annual Research Report
    • Invited
  • [Presentation] Toward Understanding of Adaptive Evolution: Computational Analysis and Experimental Evolution2015

    • Author(s)
      古澤力
    • Organizer
      QBiC Symposium: High-dimensional data for the design principles of life
    • Place of Presentation
      理化学研究所 生命システム研究センター・吹田市・大阪府
    • Year and Date
      2015-08-24
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] 適応進化ダイナミクスの解明:微生物実験と理論解析2015

    • Author(s)
      古澤力
    • Organizer
      東大理学部物理学科 懇話会
    • Place of Presentation
      東京大学本郷キャンパス・文京区・東京都
    • Year and Date
      2015-07-17
    • Related Report
      2015 Annual Research Report
    • Invited
  • [Presentation] ゲノム解析の先に見えるもの:大腸菌進化実験の表現型・遺伝子型解析2015

    • Author(s)
      古澤力
    • Organizer
      第4回NGS現場の会
    • Place of Presentation
      筑波国際会議場・つくば市・茨城県
    • Year and Date
      2015-07-01
    • Related Report
      2015 Annual Research Report
    • Invited
  • [Presentation] 進化ダイナミクスの構成的理解~大腸菌進化実験から何が見えるか?~2015

    • Author(s)
      古澤力
    • Organizer
      第8回Evo-devo青年の会
    • Place of Presentation
      名古屋大学理学南館・名古屋市・愛知県
    • Year and Date
      2015-06-27
    • Related Report
      2015 Annual Research Report
    • Invited
  • [Presentation] 大腸菌進化過程の表現型・遺伝子型解析:抗生物質耐性菌の出現抑制へ向けて2015

    • Author(s)
      古澤力
    • Organizer
      アジレントゲノミクスフォーラム
    • Place of Presentation
      浅草橋ヒューリックホール・台東区・東京都
    • Year and Date
      2015-06-16
    • Related Report
      2015 Annual Research Report
    • Invited
  • [Presentation] Phenotypic Convergence in Experimental Evolution of Antibiotic Resistant Bacteria2015

    • Author(s)
      古澤力
    • Organizer
      2nd Symposium on Complex Biodynamics&Networks
    • Place of Presentation
      鶴岡市先端研究産業支援センターレクチャーホール・鶴岡市・山形県
    • Year and Date
      2015-05-11
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] ゲノム解析の先に何が見えるか?~大腸菌進化実験の表現型・遺伝子型解析~2015

    • Author(s)
      古澤力
    • Organizer
      1030回生物科学セミナー(東京大学理学部生物学科)
    • Place of Presentation
      東京大学本郷キャンパス・文京区・東京都
    • Year and Date
      2015-05-10
    • Related Report
      2015 Annual Research Report
    • Invited
  • [Presentation] Theoretical/experimental analysis of robustness and plasticity in biological systems2015

    • Author(s)
      古澤力
    • Organizer
      第56回植物生理学会年会シンポジウム
    • Place of Presentation
      東京
    • Year and Date
      2015-03-16 – 2015-03-18
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Presentation] 化実験から見えてきたもの:微生物の適応進化過程の理解とその応用2014

    • Author(s)
      古澤力
    • Organizer
      合成生物学シンポジウム
    • Place of Presentation
      神戸
    • Year and Date
      2014-11-25
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Presentation] Creating stress tolerant bacterial cells by experimental evolution2014

    • Author(s)
      Chikara Furusawa
    • Organizer
      5th Asian Symposium on Innovative Bio-production and Biorefinery
    • Place of Presentation
      Tainan
    • Year and Date
      2014-11-09 – 2014-11-11
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Presentation] 抗生物質を添加した環境での大腸菌進化実験2014

    • Author(s)
      古澤力
    • Organizer
      第87回生化学会大会シンポジウム
    • Place of Presentation
      京都
    • Year and Date
      2014-10-15 – 2014-10-16
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Presentation] ハイスループット実験室進化とオミックス解析による大腸菌の様々なストレスへの耐性機構の解析2014

    • Author(s)
      堀之内貴明
    • Organizer
      第66会生物工学会シンポジウム
    • Place of Presentation
      札幌
    • Year and Date
      2014-09-09 – 2014-09-11
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Presentation] 代謝デザインへ向けたシステムバイオロジー2014

    • Author(s)
      古澤力
    • Organizer
      第105回醗酵学懇話会
    • Place of Presentation
      神戸
    • Year and Date
      2014-08-19
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Book] 「進化の謎をゲノムで解く」(長谷部光泰監修)2015

    • Author(s)
      古澤力
    • Publisher
      学研メディカル秀潤社
    • Related Report
      2015 Annual Research Report
  • [Book] 生体の科学2014

    • Author(s)
      古澤力
    • Total Pages
      2
    • Publisher
      医学書院
    • Related Report
      2014 Annual Research Report
  • [Book] 細胞工学2014

    • Author(s)
      堀之内貴明、古澤力
    • Total Pages
      4
    • Publisher
      学研メディカル秀潤社
    • Related Report
      2014 Annual Research Report

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Published: 2014-04-04   Modified: 2018-03-22  

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