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Database construction for transcriptional regulation in Streptomyces and Synechocystis and these applications

Research Project

Project/Area Number 22710199
Research Category

Grant-in-Aid for Young Scientists (B)

Allocation TypeSingle-year Grants
Research Field System genome science
Research InstitutionThe Institute of Physical and Chemical Research

Principal Investigator

MAKITA Yuko  独立行政法人理化学研究所, 生命情報基盤研究部門, 研究員 (80443026)

Project Period (FY) 2010 – 2012
Project Status Completed (Fiscal Year 2012)
Budget Amount *help
¥5,690,543 (Direct Cost: ¥4,377,341、Indirect Cost: ¥1,313,202)
Fiscal Year 2012: ¥1,660,543 (Direct Cost: ¥1,277,341、Indirect Cost: ¥383,202)
Fiscal Year 2011: ¥1,950,000 (Direct Cost: ¥1,500,000、Indirect Cost: ¥450,000)
Fiscal Year 2010: ¥2,080,000 (Direct Cost: ¥1,600,000、Indirect Cost: ¥480,000)
Keywordsリファレンスデータベース / 転写制御 / 文献抽出 / 比較ゲノム / プロモータ解析 / ネットワークモチーフ解析 / データベース / Streptomyces / Synochocystis / 放線菌 / マニュアルアノテーション / 光合成細菌 / Synecocystis
Research Abstract

Recent works in bacterial transcriptional network analysis reveal that transcriptional regulations are flexible and evolve rapidly. It is therefore important to construct reference databases on transcriptional regulation of multiple model organisms. I constructed referenced databases in Streptomyces and Synechocystis with manually collected data from nearly 500 literatures. By using the collected data, I performed comparative genome analysis and network motif analysis and suggested specificity of transcriptional networks in species-specific functions, such as antibiotic synthesis of Streptomyces and photosynthesis of Synechocystis.

Report

(4 results)
  • 2012 Annual Research Report   Final Research Report ( PDF )
  • 2011 Annual Research Report
  • 2010 Annual Research Report
  • Research Products

    (12 results)

All 2013 2012 2010 Other

All Presentation (6 results) Book (2 results) Remarks (4 results)

  • [Presentation] 放線菌転写関連データベース(DBSCR)の構築とゲノムGC 含量と転写因子認識配列の相関2012

    • Author(s)
      蒔田由布子、石井崇洋、豊田哲郎、中井謙太
    • Organizer
      第35回日本分子生物学会
    • Place of Presentation
      福岡国際会議場
    • Related Report
      2012 Final Research Report
  • [Presentation] Construction of transcriptional regulatory database in Streptomyces and comparative analysis of transcription factor binding sequences2012

    • Author(s)
      Yuko MAKITA, Takahiro ISHII, Tetsuro TOYODA, Kenta NAKAI
    • Organizer
      2012 年生命医薬情報学連合大会
    • Place of Presentation
      東京都江戸川区 タワーホール船堀
    • Related Report
      2012 Final Research Report
  • [Presentation] Construction of transcriptional regulatory database in Streptomyces and comparative analysis of transcription factor binding sequences2012

    • Author(s)
      Yuko MAKITA
    • Organizer
      2012年生命医薬情報学連合大会
    • Place of Presentation
      東京都江戸川区 タワーホール船堀
    • Related Report
      2012 Annual Research Report
  • [Presentation] 放線菌転写関連データベース(DBSCR)の構築とゲノムGC含量と転写因子認識配列の相関2012

    • Author(s)
      蒔田由布子
    • Organizer
      第35回日本分子生物学会
    • Place of Presentation
      福岡国際会議場
    • Related Report
      2012 Annual Research Report
  • [Presentation] 放線菌転写関連DB:DBSCR2010

    • Author(s)
      蒔田由布子
    • Organizer
      グラム陽性菌ゲノム機能会議
    • Place of Presentation
      長野
    • Year and Date
      2010-09-03
    • Related Report
      2012 Final Research Report
  • [Presentation] 放線菌転写関連データベース(DBSCR)の構築と転写モチーフ解析2010

    • Author(s)
      蒔田由布子
    • Organizer
      グラム陽性菌ゲノム機能会議
    • Place of Presentation
      ホテル木曽路
    • Year and Date
      2010-09-03
    • Related Report
      2010 Annual Research Report
  • [Book] Bacterial Gene Regulation and Transcriptional Networks2013

    • Author(s)
      Yuko Makita
    • Publisher
      Caister Academic Press
    • Related Report
      2012 Annual Research Report
  • [Book] Chapter 10: Bacillus subtilis Transcriptional Network Bacterial Gene Regulation and Transcriptional Networks (M. Madan Babu Edit)

    • Author(s)
      Yuko MAKITA and Kenta NAKAI
    • Publisher
      Caister Academic Press
    • Related Report
      2012 Final Research Report
  • [Remarks]

    • URL

      http://dbscr.hgc.jp

    • Related Report
      2012 Final Research Report
  • [Remarks] 放線菌転写関連データベース

    • URL

      http://dbscr.hgc.jp/

    • Related Report
      2012 Annual Research Report
  • [Remarks]

    • URL

      http://dbscr.hgc.jp/

    • Related Report
      2011 Annual Research Report
  • [Remarks]

    • URL

      http://dbscr.hgc.jp/

    • Related Report
      2010 Annual Research Report

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Published: 2010-08-23   Modified: 2019-07-29  

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