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2013 Fiscal Year Final Research Report

Study on the mutational robustness of the ribosome through interspecies exchange of rRNA genes

Research Project

  • PDF
Project/Area Number 24651231
Research Category

Grant-in-Aid for Challenging Exploratory Research

Allocation TypeSingle-year Grants
Research Field System genome science
Research InstitutionNational Institute of Advanced Industrial Science and Technology

Principal Investigator

MIYAZAKI Kentaro  独立行政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) 2012-04-01 – 2014-03-31
Keywordsリボソーム / rRNA / 16S rRNA / 23S rRNA / 変異耐性
Research Abstract

Because of structural and mechanistic complexity of the ribosome, it is generally believed that rRNAs coevolve with their partner ribosomal proteins. Thus, horizontal transfer should seldom occur for 16S (or 23S) rRNA genes to maintain the structural integrity of the ribosome. Despite this general thought, however, in this study, we have shown that growth of Escherichia coli prrn-Delta7, a null mutant of rrn operons, was successfully complemented with exogenous 16S (or 23S) rRNA genes from diverse lineages of bacteria that showed only ~80% identities with those of E. coli. Thus ribosome is unexpectedly robust enough to accommodate large mutations or horizontal gene transfer.

  • Research Products

    (41 results)

All 2014 2013 2012 Other

All Journal Article (11 results) (of which Peer Reviewed: 8 results) Presentation (19 results) Book (5 results) Remarks (2 results) Patent(Industrial Property Rights) (4 results) (of which Overseas: 3 results)

  • [Journal Article] Bacterial cellular engineering by genome editing and gene silencing2014

    • Author(s)
      Nakashima N, Miyazaki K
    • Journal Title

      Int J Mol Sci

      Volume: 15 Pages: 2773-2793

    • Peer Reviewed
  • [Journal Article] 16S rRNAの「水平伝播」―異種16S rRNAによる遺伝的相補―2014

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

      化学と生物

      Volume: 52-2 Pages: 70-72

  • [Journal Article] Revisiting bacterial phylogeny : Natural and experimental evidence for horizontal gene transfer of 16S rRNA2013

    • Author(s)
      Kitahara K, Miyazaki K
    • Journal Title

      Mob Genet Elements

      Volume: 3 Pages: e24210

    • Peer Reviewed
  • [Journal Article] Metagenomic screening for aromatic compound-responsive transcriptional regulators2013

    • Author(s)
      Uchiyama T, Miyazaki K
    • Journal Title

      PLOS ONE

      Volume: 8 Pages: e75795

    • Peer Reviewed
  • [Journal Article] Characterization of a novelβ-glucosidase from a compost microbial metagenome with strong transglycosylation activity2013

    • Author(s)
      Uchiyama T, Miyazaki K, Yaoi K
    • Journal Title

      J Biol Chem

      Volume: 288 Pages: 18325-18334

    • Peer Reviewed
  • [Journal Article] Cloning, expression and characteristics of a novel alkalistable and thermostable xylanase encoding gene (mxyl) retrieved from compost-soil metagenome2013

    • Author(s)
      Verma D, Kawarabayasi Y, Miyazaki K, Satyanarayana T
    • Journal Title

      PLOS ONE

      Volume: 8 Pages: e52459

    • Peer Reviewed
  • [Journal Article] Directed evolution study unveiling key sequence factors that affect translation efficiency in Escherichia coli2013

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

      J Biosci Bioeng

      Volume: 116 Pages: 540-545

    • Peer Reviewed
  • [Journal Article] DNA fragmentation caused by an overdose of Zeocin2013

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

      J Biosci Bioeng

      Volume: 116 Pages: 644-646

    • Peer Reviewed
  • [Journal Article] Meeting Report : 1st International Functional Metagenomics Workshop May 7-8, 2012, St. Jacobs, Ontario, Canada2013

    • Author(s)
      Engel K, Ashby D, Brady SF, Cowan DA, Doemer J, Edwards EA, Fiebig K, Martens EC, McCormac D, Mead DA, Miyazaki K, Moreno-Hagelsieb G, O'Gara F, Reid A, Rose DR, Simonet P, Sjöling S, Smalla K, Streit WR, Tedman-Jones J, Valla S, Wellington EMH, Wu C-C, Liles MR, Neufeld JD, Sessitsch A, Charles TC
    • Journal Title

      Stand Genomic Sci

      Volume: 8 Pages: 106-111

  • [Journal Article] Mutational robustness of 16S ribosomal RNA, shown by experimental horizontal gene transfer in Escherichia coli2012

    • Author(s)
      Kitahara K, Yasutake Y, Miyazaki K
    • Journal Title

      Proc Natl Acad Sci USA

      Volume: 109 Pages: 19220-19225

    • Peer Reviewed
  • [Journal Article] リボソームに翻訳以外の機能を発見2012

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

      産総研TODAY

      Volume: 12 Pages: 20-20

  • [Presentation] 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
    • Organizer
      日本農芸化学会大会2014
    • Place of Presentation
      神奈川県
    • Year and Date
      2014-03-29
  • [Presentation] メタゲノム手法は培養法を凌駕するのか : 遺伝子資源取得に際しての手法間の比較2014

    • Author(s)
      末永光,水田志織,宮崎健太郎,矢追克郎
    • Organizer
      日本農芸化学会大会2014
    • Place of Presentation
      神奈川県
    • Year and Date
      2014-03-28
  • [Presentation] 腸内細菌目の16S rRNAの網状進化2014

    • Author(s)
      佐藤允治,宮崎健太郎
    • Organizer
      第8回日本ゲノム微生物学会年会
    • Place of Presentation
      東京都
    • Year and Date
      2014-03-07
  • [Presentation] Functional metagenomics and Escherichia coli host engineering for efficient enzyme discovery2014

    • Author(s)
      宮崎健太郎
    • Organizer
      Kasetsart university Seminar
    • Place of Presentation
      Bangkok, Thailand
    • Year and Date
      2014-02-21
  • [Presentation] Escherichia coli host engineering for efficient enzyme discovery2014

    • Author(s)
      宮崎健太郎
    • Organizer
      AMBC2014
    • Place of Presentation
      Bangkok, Thailand
    • Year and Date
      2014-02-20
  • [Presentation] アンチセンスRNAを用いた新規カウンターセレクション技術の開発2013

    • Author(s)
      佃美雪,中島信孝,宮崎健太郎
    • Organizer
      細胞を創る研究会6.0
    • Place of Presentation
      山形県
    • Year and Date
      2013-11-14
  • [Presentation] Ribosomal RNAの人工水平伝播による大腸菌宿主デザイン2013

    • Author(s)
      佃美雪,宮崎健太郎
    • Organizer
      細胞を創る研究会6.0
    • Place of Presentation
      山形県
    • Year and Date
      2013-11-14
  • [Presentation] Escherichia coli host engineering for efficient enzyme discovery2013

    • Author(s)
      佃美雪,宮崎健太郎
    • Organizer
      CBI学会2013年大会
    • Place of Presentation
      東京都
    • Year and Date
      2013-10-28
  • [Presentation] Escherichia coli host engineering for efficient enzyme discovery2013

    • Author(s)
      宮崎健太郎
    • Organizer
      Enzyme Engineering XXII Conference
    • Place of Presentation
      富山県
    • Year and Date
      2013-09-24
  • [Presentation] リボソーム工学に基づく大腸菌の宿主機能改変2013

    • Author(s)
      宮崎健太郎
    • Organizer
      第65回日本生物工学会大会
    • Place of Presentation
      広島県
    • Year and Date
      2013-09-19
  • [Presentation] Escherichia coli host engineering for efficient enzyme discovery2013

    • Author(s)
      宮崎健太郎
    • Organizer
      2013 SIMB Annual Meeting
    • Place of Presentation
      San Diego, USA
    • Year and Date
      2013-08-12
  • [Presentation] 大腸菌への遺伝子水平伝播実験により示された16S rRNAの種間和合性2013

    • Author(s)
      北原圭,宮崎健太郎
    • Organizer
      第10回21世紀大腸菌研究会
    • Place of Presentation
      静岡県
    • Year and Date
      2013-06-20
  • [Presentation] 系統ネットワーク法で見る腸内細菌目16S rRNAの網状進化2013

    • Author(s)
      佐藤允治,宮崎健太郎
    • Organizer
      第2回リボソームミーティング
    • Place of Presentation
      東京都
    • Year and Date
      2013-03-26
  • [Presentation] 16S rRNA置換変異による大腸菌宿主改良2013

    • Author(s)
      佃美雪,宮崎健太郎
    • Organizer
      第2回リボソームミーティング
    • Place of Presentation
      東京都
    • Year and Date
      2013-03-26
  • [Presentation] Ribosomal RNAの人工水平伝播による大腸菌宿主デザイン2013

    • Author(s)
      宮崎健太郎
    • Organizer
      産業微生物の力を深化させる日本の技~育種の最前線~我が国独自の起点・技術から
    • Place of Presentation
      東京都
    • Year and Date
      2013-02-17
  • [Presentation] 16S rRNAの置換変異による大腸菌宿主デザイン2012

    • Author(s)
      佃美雪,宮崎健太郎
    • Organizer
      「細胞を創る」研究会5.0
    • Place of Presentation
      神奈川県
    • Year and Date
      2012-11-21
  • [Presentation] メタゲノムからの有用遺伝子探索2012

    • Author(s)
      宮崎健太郎
    • Organizer
      次世代シーケンス東京セミナー・メタゲノムセミナー
    • Place of Presentation
      東京都
    • Year and Date
      2012-10-25
  • [Presentation] 16SリボソームRNAのへリックス41はリボヌクレアーゼIの特異的インヒビターである2012

    • Author(s)
      北原圭,宮崎健太郎
    • Organizer
      第9回21世紀大腸菌研究会
    • Place of Presentation
      滋賀県
    • Year and Date
      2012-06-21
  • [Presentation] Functional screening strategy2012

    • Author(s)
      宮崎健太郎
    • Organizer
      International Functional Metagenomics Workshop
    • Place of Presentation
      Waterloo, Canada
    • Year and Date
      2012-05-07
  • [Book] Encyclopedia of Metagenomics, extradiol dioxygenases retrieved from the metagenome2014

    • Author(s)
      Suenaga H, Miyazaki K
    • Publisher
      Springer
  • [Book] 進化分子工学の最前線,生物種を超えた16S rRNA遺伝子の機能相補性の解明2013

    • Author(s)
      宮崎健太郎
    • Total Pages
      223-229
    • Publisher
      NTS
  • [Book] 生体の科学,リボソームに翻訳以外の機能がある―リボヌクレアーゼ作用阻害2012

    • Author(s)
      宮崎健太郎
    • Total Pages
      356-357
    • Publisher
      医学書院
  • [Book] 生命システム工学,遺伝子資源の多様化2012

    • Author(s)
      宮崎健太郎
    • Total Pages
      18-27
    • Publisher
      化学同人
  • [Book] 生命システム工学,進化分子工学の事始2012

    • Author(s)
      宮崎健太郎
    • Total Pages
      3-17
    • Publisher
      化学同人
  • [Remarks]

    • URL

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

  • [Remarks]

    • URL

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

  • [Patent(Industrial Property Rights)] 新規なカウンターセレクション法2013

    • Inventor(s)
      佃美雪,中島信孝,宮崎健太郎
    • Industrial Property Rights Holder
      佃美雪,中島信孝,宮崎健太郎
    • Industrial Property Rights Type
      特許
    • Industrial Property Number
      特願2013-226229
    • Filing Date
      2013-10-31
    • Overseas
  • [Patent(Industrial Property Rights)] 酵素遺伝子スクリーニング法2013

    • Inventor(s)
      内山拓, 宮崎健太郎
    • Industrial Property Rights Holder
      内山拓, 宮崎健太郎
    • Industrial Property Rights Type
      特許
    • Industrial Property Number
      特願5397666
    • Acquisition Date
      2013-11-01
    • Overseas
  • [Patent(Industrial Property Rights)] 翻訳特性の改変された大腸菌2012

    • Inventor(s)
      宮崎健太郎,佃美雪
    • Industrial Property Rights Holder
      宮崎健太郎,佃美雪
    • Industrial Property Rights Type
      特許
    • Industrial Property Number
      特願2012-102128
    • Filing Date
      2012-04-27
    • Overseas
  • [Patent(Industrial Property Rights)] 翻訳特性の改変された大腸菌2012

    • Inventor(s)
      宮崎健太郎,佃美雪
    • Industrial Property Rights Holder
      宮崎健太郎,佃美雪
    • Industrial Property Rights Type
      特許
    • Industrial Property Number
      61/611827
    • Filing Date
      2012-03-16

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Published: 2015-06-25  

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