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Rapid and concerted evolution by hypervariability of Megasatellite DNA

Research Project

Project/Area Number 16570006
Research Category

Grant-in-Aid for Scientific Research (C)

Allocation TypeSingle-year Grants
Section一般
Research Field Genetics/Genome dynamics
Research InstitutionNotional Institute of Agrobiological Sciences

Principal Investigator

SEZUTSU Hideki  National Institute of Agrobiological Sciences, Insect Biotechnology and Sericology Department, Research scientist, 昆虫生産工学研究グループ, 研究員 (70342805)

Co-Investigator(Kenkyū-buntansha) GONDO Yoichi  RIKEN Genomic Sciences Center, Population and quantitative genomics team, Team leader, 個体遺伝情報研究チーム, チームリーダー (40225678)
Project Period (FY) 2004 – 2005
Project Status Completed (Fiscal Year 2005)
Budget Amount *help
¥3,000,000 (Direct Cost: ¥3,000,000)
Fiscal Year 2005: ¥1,400,000 (Direct Cost: ¥1,400,000)
Fiscal Year 2004: ¥1,600,000 (Direct Cost: ¥1,600,000)
Keywordsmegastellite DNA / repetitive sequence / ubiquitin-specific protease / RS447 / tandem repeat / ゲノム構造 / 可変性 / コピー数 / 脱ユビチキン化酵素 / タンデム構造 / 変動
Research Abstract

Megasatellite DNA is newly discovered tandem repetitive sequence range in size from 3-4.7 kb. RS447 megasatellite DNA found on human 4p16.1 consists of 20-100 hypervariable copies of the 4,746 bp unit sequence. Interestingly, RS447 is not junk DNA but has an open reading frame of 1590 bp encoding ubiquitin-specific protease 17 (USP17). In the previous study by genomic southern hybridization, RS447 sequence was well conserved in mammalian species : monkey, dog, cow, rabbit, rat and mouse. The head-to-tail tandem repetitive structure of the RS447 homologs was also confirmed in those species. However, the mouse genome did not have the tandem structure. In addition, the size of the repeating units differs from species to species. The divergence of RS447 homologs suggested that the megasatellite DNA had evolved rapidly.
To understand the possible dynamic evolution of the megasatellite DNA, we have studied whether or not the RS447 homolog is in the other organisms by genomic southern blots and by bioinformatics. By genomic southern hybridization analysis, the RS447 homolog was conserved in three primate species, cat, horse, sheep, chicken and carp. Whether the RS447 homologs are repeated tandemly or not was surprisingly differed from species to species. In bioinformatics analysis, we could find the RS447 homologs in genome database of various organisms : e.g.human, chimp, macaque, rat, mouse, cow, dog, chicken, fish, frog, rice, fly and silkworm. The RS447 homologs as ubiquitin-specific protease are thought to be conserved but evolving rapidly. The copy numbers of RS447 homologs are hypervariable among species. On the other hand, the unit sequences of the tandem repeats within species are likely homogeneous by concerted evolution.

Report

(3 results)
  • 2005 Annual Research Report   Final Research Report Summary
  • 2004 Annual Research Report
  • Research Products

    (13 results)

All 2005 2004

All Journal Article (12 results) Book (1 results)

  • [Journal Article] Implementation of the modified-SHIRPA protocol for screening of dominant phenotypes in a large-scale ENU mutagenesis program2005

    • Author(s)
      Hiroshi Masuya
    • Journal Title

      Mamm Genome. 16(11)

      Pages: 829-837

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Molecular characterization of ENU mouse mutagenesis and archives2005

    • Author(s)
      Yoshiyuki Sakurada
    • Journal Title

      Biochem Biophys Res Commun. 336(2)

      Pages: 609-616

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Enamelin (Enam) is essential for amelogenesis : ENU-induced mouse mutants as models for different clinical subtypes of human amelogenesis imperfecta (AI)2005

    • Author(s)
      Hirosi Masuya
    • Journal Title

      Hum Mol Genet. 14(5)

      Pages: 575-583

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Implementation of the modified-SHIRPA protocol for screening of dominant phenotypes in a large-scale ENU mutagenesis program.2005

    • Author(s)
      Masuya H, Inoue M, Wada Y, Shimizu A, Nagano J, Kawai A, Inoue A, Kagami T, Hirayama T, Yamaga A, Kaneda H, Kobayashi K, Minowa O, Miura I, Gondo Y, Noda T, Wakana S, Shiroishi T.
    • Journal Title

      Mamm Genome. 16(11)

      Pages: 829-837

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Molecular characterization of ENU mouse mutagenesis and archives.2005

    • Author(s)
      Sakuraba Y, Sezutsu H, Takahasi KR, Tsuchihashi K, Ichikawa R, Fujimoto N, Kaneko S, Nakai Y, Uchiyama M, Goda N, Motoi R, Ikeda A, Karashima Y, Inoue M, Kaneda H, Masuya H, Minowa O, Noguchi H, Toyoda A, Sakaki Y, Wakana S, Noda T, Shiroishi T, Gondo Y.
    • Journal Title

      Biochem Biophys Res Commun. 336(2)

      Pages: 609-616

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Enamelin (Enam) is essential for amelogenesis : ENU-induced mouse mutants as models for different clinical subtypes of human amelogenesis imperfecta (AI).2005

    • Author(s)
      Masuya H, Shimizu K, Sezutsu H, Sakuraba Y, Nagano J, Shimizu A, Fujimoto N, Kawai A, Miura I, Kaneda H, Kobayashi K, Ishijima J, Maeda T, Gondo Y, Noda T, Wakana S, Shiroishi T.
    • Journal Title

      Hum Mol Genet. 14(5)

      Pages: 575-583

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Development and implementation of a database system to manage a large-scale mouse ENU-mutagenesis program2004

    • Author(s)
      Hirosi Masuya
    • Journal Title

      Mamm Genome. 15(5)

      Pages: 404-411

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] A series of maturity onset diabetes of the young, type 2(MODY2) mouse models generated by a large-scale ENU mutagenesis program2004

    • Author(s)
      Maki Inoue
    • Journal Title

      Hum Mol Genet. 13(11)

      Pages: 1147-1157

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Phylogenetic conservation of a limb-specific, cis-acting regulator of Sonic hedgehog (Shh)2004

    • Author(s)
      Tomoko Sagai
    • Journal Title

      Mamm Genome. 15(1)

      Pages: 23-34

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Development and implementation of a database system to manage a large-scale mouse ENU-mutagenesis program.2004

    • Author(s)
      Masuya H, Nakai Y, Motegi H, Niinaya N, Kida Y, Kaneko Y, Aritake H, Suzuki N, Ishii J, Koorikawa K, Suzuki T, Inoue M, Kobayashi K, Toki H, Wada Y, Kaneda H, Ishijima J, Takahashi KR, Minowa O, Noda T, Wakana S, Gondo Y, Shiroishi T.
    • Journal Title

      Mamm Genome. 15(5)

      Pages: 404-411

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] A series of maturity onset diabetes of the young, type 2 (MODY2) mouse models generated by a large-scale ENU mutagenesis program.2004

    • Author(s)
      Inoue M, Sakuraba Y, Motegi H, Kubota N, Toki H, Matsui J, Toyoda Y, Miwa I, Terauchi Y, Kadowaki T, Shigeyama Y, Kasuga M, Adachi T, Fujimoto N, Matsumoto R, Tsuchihashi K, Kagami T, Inoue A, Kaneda H, Ishijima J, Masuya H, Suzuki T, Wakana S, Gondo Y, Minowa O, Shiroishi T, Noda T.
    • Journal Title

      Hum Mol Genet. 13(11)

      Pages: 1147-1157

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Journal Article] Phylogenetic conservation of a limb-specific, cis-acting regulator of Sonic hedgehog (Shh)2004

    • Author(s)
      Sagai T, Masuya H, Tamura M, Shimizu K, Yada Y, Wakana S, Gondo Y, Noda T, Shiroishi T.
    • Journal Title

      Mamm Genome. 15(1)

      Pages: 23-34

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2005 Final Research Report Summary
  • [Book] "大規模マウスミュータジェネシスプロジェクト"ゲノミクス・プロテオミクスの新展開 : 生物情報の解析と応用、加藤郁之進ほか(編)2004

    • Author(s)
      権藤洋一
    • Total Pages
      9
    • Publisher
      エヌ・ティー・エス,東京
    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2005 Final Research Report Summary

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Published: 2004-04-01   Modified: 2016-04-21  

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