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Study of bacterial pathogenicity evolution by whole genome sequence comparison

Research Project

Project/Area Number 24790412
Research Category

Grant-in-Aid for Young Scientists (B)

Allocation TypeMulti-year Fund
Research Field Bacteriology (including Mycology)
Research InstitutionThe University of Tokyo

Principal Investigator

FURUTA Yoshikazu  東京大学, 新領域創成科学研究科, 特任助教 (40613667)

Project Period (FY) 2012-04-01 – 2014-03-31
Project Status Completed (Fiscal Year 2013)
Budget Amount *help
¥4,420,000 (Direct Cost: ¥3,400,000、Indirect Cost: ¥1,020,000)
Fiscal Year 2013: ¥2,210,000 (Direct Cost: ¥1,700,000、Indirect Cost: ¥510,000)
Fiscal Year 2012: ¥2,210,000 (Direct Cost: ¥1,700,000、Indirect Cost: ¥510,000)
Keywordsゲノム比較解析 / ピロリ菌 / 次世代シークエンサー / ゲノム再編 / de novo assembly / Mate-pairライブラリ / ゲノム進化
Research Abstract

We developed a method to sequence a whole genome sequence of Helicobacter pylori in high fidelity and high speed manner by utilizing next generation sequencing technology. We adopted this method to 30 strains of East Asian H. pylori strains and confirmed the following East Asian specific characters: (i) duplication of outer membrane protein coding gene oipA, (ii) inactivation of molybdenum related protein coding genes, (iii) 6 positions for genome inversion.

Report

(3 results)
  • 2013 Annual Research Report   Final Research Report ( PDF )
  • 2012 Research-status Report
  • Research Products

    (17 results)

All 2014 2013 2012

All Journal Article (5 results) (of which Peer Reviewed: 5 results,  Open Access: 1 results) Presentation (11 results) Book (1 results)

  • [Journal Article] Chromosome painting in silico in a bacterial species reveals fine population structure2013

    • Author(s)
      Koji Yahara, Ynshikazu Furuta, Kenshiro Oshima, Masaru Yoshida, Takeshi Azuma, Masahira Hattori, Ikuo Uchiyama, Ichizo Kobayashi
    • Journal Title

      Molecular Biology and Evolution

      Volume: 30(6) Issue: 6 Pages: 1454-64

    • DOI

      10.1093/molbev/mst055

    • Related Report
      2013 Annual Research Report 2013 Final Research Report 2012 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] Large variations in bacterial ribosomal RNA genes.2012

    • Author(s)
      K Lim, Y Furuta, I Kobayashi
    • Journal Title

      Mol. Biol. Evol

      Volume: 29(10) Issue: 10 Pages: 2937-2948

    • DOI

      10.1093/molbev/mss101

    • Related Report
      2012 Research-status Report
    • Peer Reviewed
  • [Journal Article] Genome-wide survey of mutual homologous recombination in a highly sexual bacterial species2012

    • Author(s)
      K Yahara, et al., I Kobayashi
    • Journal Title

      Genome Biol. Evol

      Volume: 4(5) Issue: 5 Pages: 628-640

    • DOI

      10.1093/gbe/evs043

    • Related Report
      2012 Research-status Report
    • Peer Reviewed
  • [Journal Article] Movement of DNAsequence recognition domains between non-orthologous proteins2012

    • Author(s)
      Y Furuta, I Kobayashi
    • Journal Title

      Nucleic AcidsRes

      Volume: 40(18) Issue: 18 Pages: 9218-9232

    • DOI

      10.1093/nar/gks681

    • Related Report
      2012 Research-status Report
    • Peer Reviewed
  • [Journal Article] Mobility of DNA sequence recognition domains in DNA methyltransferases suggests epigenetics-driven adaptive evolution.2012

    • Author(s)
      Yoshikazu Furuta, Ichizo Kobayashi
    • Journal Title

      Mobile Genetic Elements

      Volume: 2(6) Issue: 6 Pages: 292-296

    • DOI

      10.4161/mge.23371

    • Related Report
      2012 Research-status Report
    • Peer Reviewed
  • [Presentation] Chromosome painting in silico in a bacterial species reveals fine population structure2014

    • Author(s)
      Koji Yahara, Yoshikazu Furuta, Masahira Hattori, Ichizo Kobayashi
    • Organizer
      第87回日本細菌学会総会
    • Place of Presentation
      タワーホール船堀、東京都
    • Year and Date
      2014-03-26
    • Related Report
      2013 Annual Research Report 2013 Final Research Report
  • [Presentation] Chromosome painting in silico in a bacterial species reveals fine population structure2014

    • Author(s)
      Koji Yahara, Yoshikazu Furuta, Kenshiro Oshima, Masaru Yoshida, Takeshi Azuma, Masahira Hattori, Ikuo Uchiyama, Ichizo Kobayashi
    • Organizer
      第8回日本ゲノム微生物学会年会
    • Place of Presentation
      東京農業大学、東京都
    • Year and Date
      2014-03-07
    • Related Report
      2013 Annual Research Report 2013 Final Research Report
  • [Presentation] 種内集団構造のインシリコ染色体ペインティングによる解明2013

    • Author(s)
      矢原耕史、古田芳一、大島健志朗、吉田優、東健、服部正平、内山郁夫、小林一三
    • Organizer
      日本遺伝学会第85回大会
    • Place of Presentation
      慶應義塾大学、神奈川県
    • Year and Date
      2013-09-21
    • Related Report
      2013 Final Research Report
  • [Presentation] 種内集団構造のインシリコ染色体ペインティングによる解明2013

    • Author(s)
      矢原耕史、古田芳一、大島健志朗、吉田優、東健、服部正平、内山郁夫、小林一三
    • Organizer
      日本進化学会第15回大会
    • Place of Presentation
      茨城大学、茨城県
    • Year and Date
      2013-08-29
    • Related Report
      2013 Final Research Report
  • [Presentation] 種内集団構造のインシリコ染色体ペインティングによる解明2013

    • Author(s)
      矢原耕史、古田芳一、大島健志朗、吉田優、東健、服部正平、内山郁夫、小林一三
    • Organizer
      日本進化学会第15回大会
    • Place of Presentation
      筑波大学、茨城県
    • Related Report
      2013 Annual Research Report
  • [Presentation] 種内集団構造のインシリコ染色体ペインティングによる解明2013

    • Author(s)
      矢原耕史、古田芳一、大島健志朗、吉田優、東健、服部正平、内山郁夫、小林一三
    • Organizer
      日本遺伝学会第85回大会
    • Place of Presentation
      慶応義塾大学、神奈川県
    • Related Report
      2013 Annual Research Report
  • [Presentation] DNA配列認識ドメインの非オーソロガス遺伝子間の移動2013

    • Author(s)
      古田芳一、小林一三
    • Organizer
      第86回日本細菌学会総会
    • Place of Presentation
      幕張メッセ、千葉県
    • Related Report
      2012 Research-status Report
  • [Presentation] DNA配列認識ドメインの非オーソロガス遺伝子間の移動2013

    • Author(s)
      古田芳一、小林一三
    • Organizer
      第7回日本ゲノム微生物学会年会
    • Place of Presentation
      長浜バイオ大学、滋賀県
    • Related Report
      2012 Research-status Report
  • [Presentation] Epigenome evolution―Two mechanisms in alteration of DNA sequence recognition domains in restriction-modification systems.2012

    • Author(s)
      Yoshikazu Furuta, Ichizo Kobayashi
    • Organizer
      Bacteria, Archaea & Phages
    • Place of Presentation
      Cold Spring Harbor, New York, US
    • Related Report
      2012 Research-status Report
  • [Presentation] DNA配列認識ドメインの非オーソロガス遺伝子間の移動2012

    • Author(s)
      古田芳一、小林一三
    • Organizer
      第35回日本分子生物学会年会
    • Place of Presentation
      マリンメッセ福岡、福岡県
    • Related Report
      2012 Research-status Report
  • [Presentation] ピロリ菌CagA発がんタンパクのDNA組換えによる進化2012

    • Author(s)
      古田芳一、小林一三
    • Organizer
      第18回日本ヘリコバクター学会学術集会
    • Place of Presentation
      岡山コンベンションセンター、岡山県
    • Related Report
      2012 Research-status Report
  • [Book] Bacterial Integrative Mobile Genetic Elements2013

    • Author(s)
      Yoshikazu Furuta, Ichizo Kobayashi.
    • Total Pages
      336
    • Publisher
      Restriction-modification systems as mobile epigenetic elements.
    • Related Report
      2012 Research-status Report

URL: 

Published: 2013-05-31   Modified: 2019-07-29  

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