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Evolutionary mechanism of antigenic variation genes

Research Project

Project/Area Number 26280105
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypePartial Multi-year Fund
Section一般
Research Field Life / Health / Medical informatics
Research Institution大学共同利用機関法人情報・システム研究機構(機構本部施設等) (2017)
Kyoto University (2014-2016)

Principal Investigator

Goto Susumu  大学共同利用機関法人情報・システム研究機構(機構本部施設等), データサイエンス共同利用基盤施設, 教授 (40263149)

Project Period (FY) 2014-04-01 – 2018-03-31
Project Status Completed (Fiscal Year 2017)
Budget Amount *help
¥15,210,000 (Direct Cost: ¥11,700,000、Indirect Cost: ¥3,510,000)
Fiscal Year 2017: ¥3,250,000 (Direct Cost: ¥2,500,000、Indirect Cost: ¥750,000)
Fiscal Year 2016: ¥3,250,000 (Direct Cost: ¥2,500,000、Indirect Cost: ¥750,000)
Fiscal Year 2015: ¥3,510,000 (Direct Cost: ¥2,700,000、Indirect Cost: ¥810,000)
Fiscal Year 2014: ¥5,200,000 (Direct Cost: ¥4,000,000、Indirect Cost: ¥1,200,000)
Keywords抗原変異 / 比較ゲノム / 遺伝子ファミリー / 進化 / 病原微生物 / バイオインフォマティクス
Outline of Final Research Achievements

One of the mechanisms for microbial parasites to evade host immune systems is antigenic variation, which alters target antigens of the host immune attack to escape from their recognition. We have developed a database named varDB by accumulating information on proteins regarding antigenic variations and analyzed their amino acid and nucleotide sequences to elucidate their evolutionary mechanisms. Mainly focusing on the malaria parasites, Plasmodium species, whose complete genome sequences are available, we have collected related sequence information based on the literature search and ortholog detection, to make the interspecies comparisons available. We have also developed a computational pipeline for analyzing their evolutionary relationships and applied it to human evolution and biosynthetic pathway evolution analyses.

Report

(5 results)
  • 2017 Annual Research Report   Final Research Report ( PDF )
  • 2016 Annual Research Report
  • 2015 Annual Research Report
  • 2014 Annual Research Report
  • Research Products

    (7 results)

All 2017 Other

All Journal Article (3 results) (of which Peer Reviewed: 3 results,  Open Access: 3 results,  Acknowledgement Compliant: 3 results) Remarks (4 results)

  • [Journal Article] Type III polyketide synthases: functional classification and phylogenomics.2017

    • Author(s)
      Shimizu, Y., Ogata, H. and Goto, S.
    • Journal Title

      ChemBioChem

      Volume: 18 Issue: 1 Pages: 50-65

    • DOI

      10.1002/cbic.201600522

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access / Acknowledgement Compliant
  • [Journal Article] Discriminating the reaction types of plant type III polyketide synthases.2017

    • Author(s)
      Shimizu, Y., Ogata, H. and Goto, S.
    • Journal Title

      Bioinformatics

      Volume: 印刷中 Issue: 13 Pages: 1937-1943

    • DOI

      10.1093/bioinformatics/btx112

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access / Acknowledgement Compliant
  • [Journal Article] Revealing phenotype-associated functional differences by genome-wide scan of ancient haplotype blocks.2017

    • Author(s)
      Onuki, R., Yamaguchi, R., Shibuya, T., Kanehisa, M. and Goto, S.
    • Journal Title

      PLOS ONE

      Volume: 印刷中

    • NAID

      120006309307

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access / Acknowledgement Compliant
  • [Remarks] varDB: Antigenic variation database

    • URL

      http://www.vardb.org/

    • Related Report
      2017 Annual Research Report 2016 Annual Research Report
  • [Remarks] varDB: Antigenic variation database(開発サイト)

    • URL

      http://vardb.dbcls.jp/

    • Related Report
      2017 Annual Research Report
  • [Remarks] 抗原変異遺伝子ファミリーデータベース varDB

    • URL

      http://www.vardb.org/

    • Related Report
      2015 Annual Research Report
  • [Remarks] 抗原変異データベース varDB

    • URL

      http://www.vardb.org/

    • Related Report
      2014 Annual Research Report

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Published: 2014-04-04   Modified: 2019-03-29  

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