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Allopolyploid speciation in the non-model plant Ficus iidaiana: analysis of single-copy nuclear genes and RAD-seq markers

Research Project

Project/Area Number 25650129
Research Category

Grant-in-Aid for Challenging Exploratory Research

Allocation TypeMulti-year Fund
Research Field Evolutionary biology
Research InstitutionKyushu University

Principal Investigator

Kusumi Junko  九州大学, 比較社会文化研究院, 准教授 (20510522)

Co-Investigator(Renkei-kenkyūsha) SU Zhi-hui  株式会社生命誌研究館, 研究員 (40396221)
Project Period (FY) 2013-04-01 – 2016-03-31
Project Status Completed (Fiscal Year 2015)
Budget Amount *help
¥4,290,000 (Direct Cost: ¥3,300,000、Indirect Cost: ¥990,000)
Fiscal Year 2015: ¥650,000 (Direct Cost: ¥500,000、Indirect Cost: ¥150,000)
Fiscal Year 2014: ¥1,560,000 (Direct Cost: ¥1,200,000、Indirect Cost: ¥360,000)
Fiscal Year 2013: ¥2,080,000 (Direct Cost: ¥1,600,000、Indirect Cost: ¥480,000)
Keywords異質倍数体 / 種分化 / RAD-seq / イチジク属 / 倍数体進化 / 遺伝的多様性 / 固有種 / 共種分化
Outline of Final Research Achievements

Allopolyploid arise as a result of the hybridization between two related species and genome doubling, which has long been recognized as an important mode of plant speciation. In this project, we investigated genome-wide nucleotide polymorphisms of three endemic Ficus species in the Ogasawara Islands to reveal the genetic background of allopolyploid speciation of these species. The analyses based on single-copy nuclear genes and RAD-seq markers suggested that F. iidaiana (allotetraploid) has two divergent parental lineages. The divergence time between the parental lineages was estimated to be roughly 25-33 MYA. All of the endemic Ficus species have low levels of nucleotide diversity and there was a significant genetic differentiation between the diploid species (F. boninshimae and F. nishimurae) and F. iidaiana.

Report

(4 results)
  • 2015 Annual Research Report   Final Research Report ( PDF )
  • 2014 Research-status Report
  • 2013 Research-status Report
  • Research Products

    (7 results)

All 2016 2015 2014

All Journal Article (3 results) (of which Int'l Joint Research: 1 results,  Peer Reviewed: 3 results,  Open Access: 2 results,  Acknowledgement Compliant: 1 results) Presentation (4 results)

  • [Journal Article] A model of compensatory molecular evolution involving multiple sites in RNA molecules2016

    • Author(s)
      Junko Kusumi, Motoshi Ichinose, Masasuke Takefu, Robert Piskol, Wolfgang Stephan and Masaru Iizuka
    • Journal Title

      Journal of Theoretical Biology

      Volume: 388 Pages: 96-107

    • DOI

      10.1016/j.jtbi.2015.10.008

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
  • [Journal Article] Evolutionary rate variation in two conifer species, <i>Taxodium</i> <i>distichum</i> (L.) Rich. var. <i>distichum</i> (baldcypress) and <i>Cryptomeria japonica</i> (Thunb. ex L.f.) D. Don (Sugi, Japanese cedar)2015

    • Author(s)
      Junko Kusumi, Hidenori Tachida
    • Journal Title

      Genes & Genetic Systems

      Volume: 90 Issue: 5 Pages: 305-315

    • DOI

      10.1266/ggs.14-00079

    • NAID

      130005138536

    • ISSN
      1341-7568, 1880-5779
    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Isolation and characterization of 15 polymorphic microsatellite markers for the fig-pollinating wasp, Blastophaga nipponica (Hymenoptera: Agaonidae)2014

    • Author(s)
      Junko Kusumi & Zhi-Hui Su
    • Journal Title

      Applied Entomology and Zoology

      Volume: 49 Issue: 3 Pages: 487-491

    • DOI

      10.1007/s13355-014-0267-x

    • NAID

      40020169522

    • Related Report
      2013 Research-status Report
    • Peer Reviewed
  • [Presentation] Genetic variation of MHC genes in the Japanese finless porpoise (Neophocaena asiaeorientalis sunameri)2015

    • Author(s)
      Mitsuhiro Aizu, Shin Nishida, Junko Kusumi, Yuko Tajima, Masao Amano, Motoi Yoshioka, Tadasu K. Yamada, Kunio Araya,
    • Organizer
      The 21th Biennial Conference on the Biology of Marine Mammals
    • Place of Presentation
      San Francisco, California
    • Year and Date
      2015-12-13
    • Related Report
      2015 Annual Research Report
  • [Presentation] アンプリコンシークエンス解析による塩基配列多型データに基づく針葉樹スギ(Cryptomeria japonica)の集団構造の推定2015

    • Author(s)
      森口夏季, 内山憲太郎, 宮城竜太郎, 高橋 文, 田村浩一郎, 津村義彦, 手島 康介, 楠見 淳子, 舘田 英典
    • Organizer
      日本遺伝学会
    • Place of Presentation
      東北大学川内北キャンパス(宮城県仙台市)
    • Year and Date
      2015-09-24
    • Related Report
      2015 Annual Research Report
  • [Presentation] 小笠原固有イチジク属植物の起源2014

    • Author(s)
      浦志知恵、蘇智慧、楠見淳子
    • Organizer
      第16回日本進化学会年会
    • Place of Presentation
      大阪府 高槻市
    • Year and Date
      2014-08-21 – 2014-08-24
    • Related Report
      2014 Research-status Report
  • [Presentation] イチジク属植物とイチジクコバチの地域的分化2014

    • Author(s)
      蘇 智慧, 楠見 淳子
    • Organizer
      昆虫DNA研究会
    • Place of Presentation
      茨城県 つくば市
    • Year and Date
      2014-05-17 – 2014-05-18
    • Related Report
      2014 Research-status Report

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Published: 2014-07-25   Modified: 2019-07-29  

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