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Accurate sequencing of tandem repeat DNA

Research Project

Project/Area Number 15K14435
Research Category

Grant-in-Aid for Challenging Exploratory Research

Allocation TypeMulti-year Fund
Research Field System genome science
Research InstitutionKyoto University

Principal Investigator

Koga Akihiko  京都大学, 霊長類研究所, 教授 (80192574)

Project Period (FY) 2015-04-01 – 2017-03-31
Project Status Completed (Fiscal Year 2016)
Budget Amount *help
¥3,770,000 (Direct Cost: ¥2,900,000、Indirect Cost: ¥870,000)
Fiscal Year 2016: ¥1,820,000 (Direct Cost: ¥1,400,000、Indirect Cost: ¥420,000)
Fiscal Year 2015: ¥1,950,000 (Direct Cost: ¥1,500,000、Indirect Cost: ¥450,000)
Keywords塩基配列決定 / 反復配列 / 変異導入 / コンセンサス配列 / コンティグ配列 / コンセスサスハイレツ / トランスポゾン / 塩基配列 / バイオテクノロジー
Outline of Final Research Achievements

The shotgun sequencing method is not powerful enough to obtain accurate sequence data of tandem repeat DNA. Five years ago, I developed an alternative, efficient method. The purpose of the present research was to develop a higher-performance method based on a different principle.
The new method I established was demonstrated to produce sequence data of which the accuracy is as high as those obtained by the previous method, and far higher than those by the shotgun method. However, its performance has not yet exceeded that of the previous method in that it requires a longer period and higher cost for each sequencing assay.
At present, the new method needs additional improvements. During the two-year period, however, basic experimental data to be used toward this goal accumulated.

Report

(3 results)
  • 2016 Annual Research Report   Final Research Report ( PDF )
  • 2015 Research-status Report
  • Research Products

    (10 results)

All 2017 2016 2015 Other

All Int'l Joint Research (1 results) Journal Article (3 results) (of which Int'l Joint Research: 1 results,  Peer Reviewed: 3 results,  Open Access: 3 results) Presentation (5 results) (of which Int'l Joint Research: 2 results,  Invited: 2 results) Book (1 results)

  • [Int'l Joint Research] カセサート大学(タイ)

    • Related Report
      2015 Research-status Report
  • [Journal Article] Night monkey hybrids exhibit de novo genomic and karyotypic alterations: the first such case in primates2017

    • Author(s)
      *Hirai H, Hirai Y, Morimoto M, Kaneko A, Kamanaka Y, Koga A
    • Journal Title

      Genome Biology and Evolution

      Volume: 9 (4) Issue: 4 Pages: 945-955

    • DOI

      10.1093/gbe/evx058

    • NAID

      120006822503

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Formation of functional CENP-B boxes at diverse locations in repeat units of centromeric DNA in New World monkeys.2016

    • Author(s)
      Kugou K, Hirai H, Masumoto H, Koga A.
    • Journal Title

      Scientific Reports

      Volume: 6 Issue: 1 Pages: 27833-27833

    • DOI

      10.1038/srep27833

    • NAID

      120005818231

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] CENP-B box, a nucleotide motif involved in centromere formation, occurs in a New World monkey2016

    • Author(s)
      Suntronpong A, Kugou K, Masumoto H, Srikulnath K, Ohshima K, Hirai H, *Koga A
    • Journal Title

      Biology Letters

      Volume: 12 Issue: 3 Pages: 20150817-20150817

    • DOI

      10.1098/rsbl.2015.0817

    • Related Report
      2015 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Presentation] Amplification of tandem repeat DNA may be responsible for a rapid shift from diurnality to nocturnality in a primate taxon2016

    • Author(s)
      Koga A, Tanabe H, Hirai H
    • Organizer
      第39回日本分子生物学会年会
    • Place of Presentation
      パシフィコ横浜(横浜市)
    • Year and Date
      2016-11-30
    • Related Report
      2016 Annual Research Report
    • Invited
  • [Presentation] セントロメア反復配列の急速な入れ替わり:テナガザルとヨザルの例2016

    • Author(s)
      古賀章彦、平井啓久
    • Organizer
      日本遺伝学会第88回大会
    • Place of Presentation
      日本大学国際関係学部(静岡県三島市)
    • Year and Date
      2016-09-07
    • Related Report
      2016 Annual Research Report
  • [Presentation] Rapid replacement of centromeres by a varianttype repetitive DNA in a primate taxon2016

    • Author(s)
      Koga A
    • Organizer
      Society for Molecular Biology and Evolution Conference 2016
    • Place of Presentation
      Gold Coast Convention and Exhibition Centre (Australia)
    • Year and Date
      2016-07-03
    • Related Report
      2016 Annual Research Report
    • Int'l Joint Research
  • [Presentation] CENP-B box is likely to confer a selective advantage on its host organism2015

    • Author(s)
      Suntronpong A, 久郷和人、舛本寛、平井啓久、古賀章彦
    • Organizer
      第87回日本遺伝学会大会
    • Place of Presentation
      東北大学川内キャンパス(仙台市)
    • Year and Date
      2015-09-24
    • Related Report
      2015 Research-status Report
  • [Presentation] Higher-order repeat structure in centromere-region satellite DNA occurs in a wide range of primates2015

    • Author(s)
      Koga A, Hirai Y, Sujiwattanarat P, Thapana W, Baicharoen S, Srikulnath K, Hirai H
    • Organizer
      The 5th Asian Chromosome Colloquium
    • Place of Presentation
      カセサート大学(タイ王国)
    • Year and Date
      2015-04-29
    • Related Report
      2015 Research-status Report
    • Int'l Joint Research / Invited
  • [Book] ヒトと類人猿に見られる非コードDNAの大きな違い(小林武彦編「ゲノムを司るインターメア:非コードDNAの新たな展開」の第15章)2015

    • Author(s)
      古賀章彦
    • Total Pages
      12
    • Publisher
      化学同人
    • Related Report
      2015 Research-status Report

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Published: 2015-04-16   Modified: 2022-02-16  

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