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Accelerated adaptive bacterial evolution by ribosome engineering

Research Project

Project/Area Number 20K20453
Project/Area Number (Other) 19H05538 (2019)
Research Category

Grant-in-Aid for Challenging Research (Pioneering)

Allocation TypeMulti-year Fund (2020)
Single-year Grants (2019)
Review Section Medium-sized Section 38:Agricultural chemistry and related fields
Research InstitutionNational Institute of Advanced Industrial Science and Technology

Principal Investigator

Miyazaki kentaro  国立研究開発法人産業技術総合研究所, 生命工学領域, 研究グループ長 (60344123)

Project Period (FY) 2019-06-28 – 2022-03-31
Project Status Completed (Fiscal Year 2021)
Budget Amount *help
¥26,000,000 (Direct Cost: ¥20,000,000、Indirect Cost: ¥6,000,000)
Fiscal Year 2021: ¥8,190,000 (Direct Cost: ¥6,300,000、Indirect Cost: ¥1,890,000)
Fiscal Year 2020: ¥8,190,000 (Direct Cost: ¥6,300,000、Indirect Cost: ¥1,890,000)
Fiscal Year 2019: ¥9,620,000 (Direct Cost: ¥7,400,000、Indirect Cost: ¥2,220,000)
Keywordsリボソーム / 温度適応 / 低温適応 / Thermus thermophilus / ゲノム解析 / 進化工学 / Random Patch Model
Outline of Research at the Start

生物の爆発的な多様化は制御系の進化がもたらしたという史実にヒントを得て、生命システムの根幹をなす制御因子の改変が生物進化に直結す るとの仮説を立て、これに基づく生物進化工学を開発する。制御因子のうち、生体内の主たる機能分子であるタンパク質の合成を司るリボソー ムに着目し、その改変により生じる表現型の多様化された変異株ライブラリー創出と有用形質を持つ宿主を選抜する方法を確立する。

Outline of Final Research Achievements

With the goal of developing technologies for accelerated environmental adaptation of organisms, we focused on "how to utilize genomes". Specifically, by modifying the ribosome (especially 16S rRNA) of the thermophilic bacterium Thermus thermophilus, they obtained a mutant strain that can grow at low temperatures where wild strains cannot. 16S rRNA is a highly conservative molecule and is considered the identity of a species. However, the artificial modification of 16S rRNA is thought to have achieved evolution by a mechanism completely different from the conventional evolution based on the accumulation of genomic point mutations.

Academic Significance and Societal Importance of the Research Achievements

従来型のゲノムへの変異の蓄積による段階的な進化ではなく、遺伝子の発現プロファイルを変えるという新たな進化様式による生物の適応進化を示すことに成功した。本方法は、リボソームの進化的保守性という既成概念と異なる事実の発見に基づいている。

Report

(4 results)
  • 2021 Annual Research Report   Final Research Report ( PDF )
  • 2020 Research-status Report
  • 2019 Annual Research Report
  • Research Products

    (27 results)

All 2022 2021 2020 2019 Other

All Journal Article (17 results) (of which Int'l Joint Research: 3 results,  Peer Reviewed: 15 results,  Open Access: 15 results) Presentation (6 results) (of which Invited: 1 results) Remarks (4 results)

  • [Journal Article] リボソーム改変による好熱菌の低温適応進化2022

    • Author(s)
      宮崎健太郎
    • Journal Title

      アグリバイオ

      Volume: 5 Pages: 905-910

    • NAID

      40022700672

    • Related Report
      2021 Annual Research Report
  • [Journal Article] Complete Genome Resequencing of Thermus thermophilus Strain TMY by Hybrid Assembly of Long- and Short-Read Sequencing Technologies2021

    • Author(s)
      Miyazaki Kentaro、Tokito Natsuko
    • Journal Title

      Microbiology Resource Announcements

      Volume: 10 Issue: 46

    • DOI

      10.1128/mra.00979-21

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Complete Genome Sequences of Four Halophilic Thermus thermophilus Strains Isolated from Arima Hot Spring in Japan2021

    • Author(s)
      Miyazaki Kentaro、Tomariguchi Natsuki、Ueno Yuko
    • Journal Title

      Microbiology Resource Announcements

      Volume: 10 Issue: 40

    • DOI

      10.1128/mra.00874-21

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Complete Genome Sequences of Thermus thermophilus Strains HB5002 and HB5008, Isolated from Mine Hot Spring in Japan2021

    • Author(s)
      Miyazaki Kentaro、Moriya Toshiyuki、Tokito Natsuko、Oshima Tairo、Yura Kei、Bessho Yoshitaka
    • Journal Title

      Microbiology Resource Announcements

      Volume: 10 Issue: 16

    • DOI

      10.1128/mra.00272-21

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Complete Genome Sequence of Thermus thermophilus Strain HB5018, Isolated from Mine Hot Spring in Japan2021

    • Author(s)
      Miyazaki Kentaro、Moriya Toshiyuki、Nemoto Naoki、Oshima Tairo、Yura Kei、Bessho Yoshitaka
    • Journal Title

      Microbiology Resource Announcements

      Volume: 10 Issue: 10

    • DOI

      10.1128/mra.00039-21

    • Related Report
      2020 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] リボソーム改変による好熱菌の低温適応進化2021

    • Author(s)
      宮崎健太郎
    • Journal Title

      細胞

      Volume: 53 Pages: 49-53

    • NAID

      40022700672

    • Related Report
      2020 Research-status Report
  • [Journal Article] Complete Genome Sequence of Geobacillus sp. Strain E55-1, Isolated from Mine Geyser in Japan2020

    • Author(s)
      Miyazaki Kentaro、Hase Erina、Tokito Natsuko
    • Journal Title

      Microbiology Resource Announcements

      Volume: 9 Issue: 20

    • DOI

      10.1128/mra.00339-20

    • Related Report
      2020 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] Complete Genome Sequence of Pseudomonas otitidis Strain MrB4, Isolated from Lake Biwa in Japan2020

    • Author(s)
      Miyazaki Kentaro、Hase Erina、Maruya Tomomasa
    • Journal Title

      Microbiology Resource Announcements

      Volume: 9 Issue: 16

    • DOI

      10.1128/mra.00148-20

    • Related Report
      2020 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] Complete Genome Sequence of Vibrio rotiferianus Strain AM72020

    • Author(s)
      Miyazaki Kentaro、Wiseschart Apirak、Pootanakit Kusol、Kitahara Kei
    • Journal Title

      Microbiology Resource Announcements

      Volume: 9 Issue: 21

    • DOI

      10.1128/mra.01591-19

    • Related Report
      2020 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Complete Genome Sequence of Bacillus cereus Strain PL1, Isolated from Soil in Japan2020

    • Author(s)
      Miyazaki Kentaro、Hase Erina、Maruya Tomomasa
    • Journal Title

      Microbiology Resource Announcements

      Volume: 9 Issue: 12

    • DOI

      10.1128/mra.00195-20

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Complete Genome Sequences of Rhodothermus marinus Strains AA2-13 and AA3-38, Isolated from Arima Onsen Hot Spring in Japan2020

    • Author(s)
      Tomariguchi Natsuki、Miyazaki Kentaro
    • Journal Title

      Microbiology Resource Announcements

      Volume: 9 Issue: 2

    • DOI

      10.1128/mra.01475-19

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Complete Genome Sequence of Alteromonas sp. Strain I4, Isolated from the Japan Sea2019

    • Author(s)
      Miyazaki Kentaro、Izumi Kouki
    • Journal Title

      Microbiology Resource Announcements

      Volume: 8 Issue: 47

    • DOI

      10.1128/mra.01277-19

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Complete Genome Sequence of Staphylococcus arlettae Strain P2, Isolated from a Laboratory Environment2019

    • Author(s)
      Yu Hiroki、Taniguchi Makoto、Uesaka Kazuma、Wiseschart Apirak、Pootanakit Kusol、Nishitani Yudai、Murakami Yota、Ishimori Koichiro、Miyazaki Kentaro、Kitahara Kei
    • Journal Title

      Microbiology Resource Announcements

      Volume: 8 Issue: 45 Pages: 1-3

    • DOI

      10.1128/mra.00696-19

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Complete Genome Sequencing of Thermus thermophilus Strain HC11, Isolated from Mine Geyser in Japan2019

    • Author(s)
      Miyazaki Kentaro
    • Journal Title

      Microbiology Resource Announcements

      Volume: 8 Issue: 39

    • DOI

      10.1128/mra.00873-19

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Complete Genome Sequence of Rubrobacter xylanophilus Strain AA3-22, Isolated from Arima Onsen in Japan2019

    • Author(s)
      Tomariguchi Natsuki、Miyazaki Kentaro
    • Journal Title

      Microbiology Resource Announcements

      Volume: 8 Issue: 34

    • DOI

      10.1128/mra.00818-19

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Occurrence of randomly recombined functional 16S rRNA genes in Thermus thermophilus suggests genetic interoperability and promiscuity of bacterial 16S rRNAs2019

    • Author(s)
      Miyazaki Kentaro、Tomariguchi Natsuki
    • Journal Title

      Scientific Reports

      Volume: 9 Issue: 1 Pages: 11233-11233

    • DOI

      10.1038/s41598-019-47807-z

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Complete Genome Sequences of Thermus thermophilus Strains AA2-20 and AA2-29, Isolated from Arima Onsen in Japan2019

    • Author(s)
      Miyazaki Kentaro、Tomariguchi Natsuki
    • Journal Title

      Microbiology Resource Announcements

      Volume: 8 Issue: 31

    • DOI

      10.1128/mra.00820-19

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Open Access
  • [Presentation] Genetic Interoperability and Promiscuity of Bacterial 16S rRNA: Proposal for a Random Patch Model2021

    • Author(s)
      宮崎健太郎
    • Organizer
      第22回 日本RNA学会年会
    • Related Report
      2021 Annual Research Report
    • Invited
  • [Presentation] 16S rRNAは遺伝子組み換えにより進化する2020

    • Author(s)
      宮崎 健太郎、泊口 菜月
    • Organizer
      極限環境生物学会 第21回年会
    • Related Report
      2020 Research-status Report
  • [Presentation] Rubrobacter sp. AA3-22株の放射線と紫外線に対する耐性2020

    • Author(s)
      泉 洸輝、佐藤 勝也、大野 豊、宮崎 健太郎、鳴海 一成
    • Organizer
      QST高崎サイエンスフェスタ2020
    • Related Report
      2020 Research-status Report
  • [Presentation] Directed evolution: irrational approach to molecular engineering2019

    • Author(s)
      宮崎 健太郎
    • Organizer
      日本育種学会 第61回シンポジウム(招待講演)
    • Related Report
      2019 Annual Research Report
  • [Presentation] 多様性工学 ~進化を利用したセンサー分子探索と高機能化~2019

    • Author(s)
      宮崎 健太郎
    • Organizer
      日本分析化学会第68年会(招待講演)
    • Related Report
      2019 Annual Research Report
  • [Presentation] 16SrRNAは遺伝子組み換えにより進化する -リボソーム進化のRandom Patch Modelの提唱-2019

    • Author(s)
      宮崎 健太郎
    • Organizer
      第42回日本分子生物学会年会(招待講演)
    • Related Report
      2019 Annual Research Report
  • [Remarks] 生物プロセス研究部門 合成生物工学研究グループ

    • URL

      https://unit.aist.go.jp/bpri/bpri-synthe/index.html

    • Related Report
      2020 Research-status Report
  • [Remarks] 東京大学大学院 新領域創成科学研究科 メディカル情報生命専攻 生命機能分子工学分野 宮崎研究室

    • URL

      https://staff.aist.go.jp/miyazaki-kentaro/group/

    • Related Report
      2020 Research-status Report
  • [Remarks] 合成生物工学研究グループ

    • URL

      http://unit.aist.go.jp/bpri/bpri-synthe/index.html

    • Related Report
      2019 Annual Research Report
  • [Remarks] 研究室ホームページ

    • URL

      http://staff.aist.go.jp/miyazaki-kentaro/group/

    • Related Report
      2019 Annual Research Report

URL: 

Published: 2019-07-04   Modified: 2024-03-26  

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