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Functional plasticity in E. coli ribosome

Research Project

Project/Area Number 26292048
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypePartial Multi-year Fund
Section一般
Research Field Applied microbiology
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, 生物プロセス研究部門, 研究グループ長 (60344123)

Project Period (FY) 2014-04-01 – 2017-03-31
Project Status Completed (Fiscal Year 2016)
Budget Amount *help
¥16,250,000 (Direct Cost: ¥12,500,000、Indirect Cost: ¥3,750,000)
Fiscal Year 2016: ¥5,590,000 (Direct Cost: ¥4,300,000、Indirect Cost: ¥1,290,000)
Fiscal Year 2015: ¥5,590,000 (Direct Cost: ¥4,300,000、Indirect Cost: ¥1,290,000)
Fiscal Year 2014: ¥5,070,000 (Direct Cost: ¥3,900,000、Indirect Cost: ¥1,170,000)
Keywordsリボソーム / 16S rRNA / 中立進化 / キメラ遺伝子 / 機能相補 / 応用微生物 / 進化 / バイオテクノロジー / 適応進化 / 宿主 / 機能改変 / 応用微生物学 / 水平伝播
Outline of Final Research Achievements

Using E. coli null mutant of run operons, we have succeeded in obtaining functional 16S rRNA genes from various bacteria, including those from Acidobacteria, Firmicutes, and Bacteroidetes phylum, that are distantly related to E. coli. The unexpected functional plasticity in the E. coli ribosome suggest that the 16S rRNA genes have evolved by accumulating lineage-specific functionally nearly neutral evolution.

Report

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

    (35 results)

All 2017 2016 2015 2014 Other

All Journal Article (7 results) (of which Peer Reviewed: 6 results,  Open Access: 2 results,  Acknowledgement Compliant: 4 results) Presentation (22 results) (of which Int'l Joint Research: 3 results,  Invited: 10 results) Remarks (5 results) Patent(Industrial Property Rights) (1 results)

  • [Journal Article] PCR primer design for 16S rRNAs for experimental horizontal gene transfer test in Escherichia coli2017

    • Author(s)
      Miyazaki K, Sato M, Tsukuda M
    • Journal Title

      Front Bioeng Biotechnol

      Volume: 5 Pages: 14-14

    • DOI

      10.3389/fbioe.2017.00014

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] 16S リボソーマルRNAの水平伝播実験から見えてくるリボソームの可塑性2015

    • Author(s)
      佃美雪, 宮崎健太郎
    • Journal Title

      生化学

      Volume: 87 Pages: 475-477

    • Related Report
      2015 Annual Research Report
  • [Journal Article] Counterselection method based on conditional silencing of antitoxin genes in Escherichia coli2015

    • Author(s)
      Miyuki Tsukuda, Nobutaka Nakashima and Kentaro Miyazaki
    • Journal Title

      Journal of Bioscience and Bioengineering

      Volume: 未定 Issue: 5 Pages: 591-595

    • DOI

      10.1016/j.jbiosc.2015.03.008

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] Glucose-tolerant beta-glucosidase retrieved from a Kusasya gravy metagenome2015

    • Author(s)
      Taku Uchiyama, Katsuro Yaoi, Kentaro Miyazaki
    • Journal Title

      Frontiers in Microbiology

      Volume: 6 Pages: 548-548

    • DOI

      10.3389/fmicb.2015.00548

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Molecular engineering of a PheS counterselection marker for improved operating efficiency in Escherichia coli.2015

    • Author(s)
      Miyazaki K
    • Journal Title

      Biotechniques

      Volume: 58 Issue: 2 Pages: 86-88

    • DOI

      10.2144/000114257

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] Ribosomal RNAの人工水平伝播による大腸菌宿主デザイン2014

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

      生物工学会誌

      Volume: 92 Pages: 607-611

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] リボソーム改変による大腸菌宿主デザイン2014

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

      環境バイオテクノロジー学会誌

      Volume: 14 Pages: 3-8

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Presentation] Translating uncultured microbial resources to bioindustrial application2017

    • Author(s)
      Kentaro Miyazaki
    • Organizer
      AgBIO2017
    • Place of Presentation
      BITEC (Bangkok, Thailand)
    • Related Report
      2016 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] 16S rRNA遺伝子の進化中立性の実験的証明2017

    • Author(s)
      野沢 汎、宮崎 健太郎
    • Organizer
      日本ゲノム微生物学会第11回年会
    • Place of Presentation
      慶應義塾大学(神奈川県藤沢市)
    • Related Report
      2016 Annual Research Report
  • [Presentation] 大腸菌16S rRNAのドメインレベルでの遺伝子水平伝播2017

    • Author(s)
      星野 里樹、宮崎 健太郎
    • Organizer
      日本ゲノム微生物学会第11回年会
    • Place of Presentation
      慶應義塾大学(神奈川県藤沢市)
    • Related Report
      2016 Annual Research Report
  • [Presentation] Domain-based chimeragenesis in E. coli 16S rRNA2017

    • Author(s)
      Riki Hoshino and Kentaro Miyazaki
    • Organizer
      Biosystems Design 3.0
    • Place of Presentation
      Biopolis (Singapore)
    • Related Report
      2016 Annual Research Report
  • [Presentation] An extreme functional plasticity of the bacterial ribosome as revealed by the interspecies exchange of 16S rRNAs between distantly related phyla2017

    • Author(s)
      Han Nozawa and Kentaro Miyazaki
    • Organizer
      Biosystems Design 3.0
    • Place of Presentation
      Biopolis (Singapore)
    • Related Report
      2016 Annual Research Report
  • [Presentation] リニア機動分子リボソームの進化工学2016

    • Author(s)
      宮崎健太郎
    • Organizer
      日本化学会 第96春季年会
    • Place of Presentation
      同志社大学(京都府京田辺市)
    • Year and Date
      2016-03-27
    • Related Report
      2015 Annual Research Report
    • Invited
  • [Presentation] RINSPEX technique for Escherichia coli strain engineering2016

    • Author(s)
      Tsukuda M, Miyazaki K
    • Organizer
      Biosystems Design 2.0
    • Place of Presentation
      Biopolis (Singapore)
    • Year and Date
      2016-03-20
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research
  • [Presentation] リボソーム進化工学2015

    • Author(s)
      宮崎健太郎
    • Organizer
      進化分子工学研究会
    • Place of Presentation
      千葉工業大学(千葉県習志野市)
    • Year and Date
      2015-11-20
    • Related Report
      2015 Annual Research Report
    • Invited
  • [Presentation] 大腸菌リボソームの変異耐性2015

    • Author(s)
      宮崎健太郎
    • Organizer
      第17回 日本進化学会年会
    • Place of Presentation
      中央大学(東京都文京区)
    • Year and Date
      2015-08-21
    • Related Report
      2015 Annual Research Report
    • Invited
  • [Presentation] リボソーム改変によるバクテリア細胞工学2015

    • Author(s)
      宮崎健太郎
    • Organizer
      第17回 日本進化学会年会
    • Place of Presentation
      中央大学(東京都文京区)
    • Year and Date
      2015-08-20
    • Related Report
      2015 Annual Research Report
    • Invited
  • [Presentation] メタゲノムを活用した酵素スクリーニング2015

    • Author(s)
      宮崎健太郎
    • Organizer
      第15回 日本蛋白質科学会年会
    • Place of Presentation
      あわぎんホール(徳島県徳島市)
    • Year and Date
      2015-06-26
    • Related Report
      2015 Annual Research Report
    • Invited
  • [Presentation] Functional metagenomics for enzyme discovery2015

    • Author(s)
      Miyazaki K
    • Organizer
      AIST-TISTR-NSTDA workshop
    • Place of Presentation
      産業技術総合研究所臨海センター(東京都港区)
    • Year and Date
      2015-04-28
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] 大腸菌における16S rRNAの置換変異によるリボソームの寛容性の検証2015

    • Author(s)
      佃美雪、宮崎健太郎
    • Organizer
      第3回リボソームミーティング
    • Place of Presentation
      ANAホリデイ・イン リゾート宮崎(宮崎県宮崎市)
    • Year and Date
      2015-03-17
    • Related Report
      2014 Annual Research Report
  • [Presentation] リボソーム改変による大腸菌の高温適応進化2015

    • Author(s)
      佃美雪、宮崎健太郎
    • Organizer
      第9回日本ゲノム微生物学会年会
    • Place of Presentation
      神戸大学(兵庫県神戸市)
    • Year and Date
      2015-03-06
    • Related Report
      2014 Annual Research Report
  • [Presentation] バクテリア16S rRNA遺伝子の進化2015

    • Author(s)
      佐藤允治、宮崎健太郎
    • Organizer
      第9回日本ゲノム微生物学会年会
    • Place of Presentation
      神戸大学(兵庫県神戸市)
    • Year and Date
      2015-03-06
    • Related Report
      2014 Annual Research Report
  • [Presentation] リボソーム改変によるバクテリア細胞工学2015

    • Author(s)
      宮崎健太郎
    • Organizer
      第 10 回理研「バイオものづくり」シンポジウム
    • Place of Presentation
      理化学研究所(埼玉県和光市)
    • Year and Date
      2015-03-06
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Presentation] Metagenomic screening for 16S rRNA-based antibiotic resistance genes2015

    • Author(s)
      Miyazaki K
    • Organizer
      1st International Caparica Conference in Antibiotic Resistance
    • Place of Presentation
      Hotel Ever Caparica (Caparica, Portugal)
    • Year and Date
      2015-01-27
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Presentation] リボソーム工学によるバクテリア細胞機能の多様化2014

    • Author(s)
      宮崎健太郎
    • Organizer
      細胞を創る研究会7.0
    • Place of Presentation
      東京大学(東京都文京区)
    • Year and Date
      2014-11-13
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Presentation] メタゲノム手法と培養法:酵素遺伝子スクリーニングのための手法間の比較解析2014

    • Author(s)
      末永光、水田志織、宮崎健太郎、矢追克郎
    • Organizer
      環境微生物系学会合同大会2014
    • Place of Presentation
      アクトシティ浜松コングレスセンター(静岡県浜松市)
    • Year and Date
      2014-10-23
    • Related Report
      2014 Annual Research Report
  • [Presentation] PheS変異体を利用した新規大腸菌カウンターセレクションマーカーの開発2014

    • Author(s)
      宮崎健太郎
    • Organizer
      第 66 回日本生物工学会大会
    • Place of Presentation
      札幌コンベンションセンター(北海道札幌市)
    • Year and Date
      2014-09-12
    • Related Report
      2014 Annual Research Report
  • [Presentation] Toxin-Antitoxin systemを利用した大腸菌カウンターセレクション技術の開発2014

    • Author(s)
      佃美雪、中島信孝、宮崎健太郎
    • Organizer
      第 66 回日本生物工学会大会
    • Place of Presentation
      札幌コンベンションセンター(北海道札幌市)
    • Year and Date
      2014-09-12
    • Related Report
      2014 Annual Research Report
  • [Presentation] 水平伝播によるバクテリア16S rRNA遺伝子の進化の検証2014

    • Author(s)
      佐藤允治、宮崎健太郎
    • Organizer
      日本進化学会 第16回大会
    • Place of Presentation
      高槻現代劇場(大阪府高槻市)
    • Year and Date
      2014-08-22
    • Related Report
      2014 Annual Research Report
  • [Remarks] 研究室ホームページ

    • URL

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

    • Related Report
      2016 Annual Research Report
  • [Remarks]

    • URL

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

    • Related Report
      2015 Annual Research Report
  • [Remarks]

    • URL

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

    • Related Report
      2015 Annual Research Report
  • [Remarks] 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
      2014 Annual Research Report
  • [Remarks] 東京大学大学院 新領域創成科学研究科 メディカルゲノム専攻 宮崎研究室

    • URL

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

    • Related Report
      2014 Annual Research Report
  • [Patent(Industrial Property Rights)] 人工配列型16SリボソーマルRNA遺伝子2017

    • Inventor(s)
      宮崎 健太郎、星野 里樹、佃 美雪
    • Industrial Property Rights Holder
      産業技術総合研究所
    • Industrial Property Rights Type
      特許
    • Industrial Property Number
      2017-025461
    • Filing Date
      2017-02-14
    • Related Report
      2016 Annual Research Report

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

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