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An analysis of environmental adaptation in Ryukyu islanders by whole-genome sequencing

Research Project

Project/Area Number 18K14805
Research Category

Grant-in-Aid for Early-Career Scientists

Allocation TypeMulti-year Fund
Review Section Basic Section 45050:Physical anthropology-related
Research InstitutionThe University of Tokyo (2020)
University of the Ryukyus (2018-2019)

Principal Investigator

Koganebuchi Kae  東京大学, 大学院理学系研究科(理学部), 助教 (10753593)

Project Period (FY) 2018-04-01 – 2021-03-31
Project Status Completed (Fiscal Year 2020)
Budget Amount *help
¥4,160,000 (Direct Cost: ¥3,200,000、Indirect Cost: ¥960,000)
Fiscal Year 2020: ¥1,040,000 (Direct Cost: ¥800,000、Indirect Cost: ¥240,000)
Fiscal Year 2019: ¥1,560,000 (Direct Cost: ¥1,200,000、Indirect Cost: ¥360,000)
Fiscal Year 2018: ¥1,560,000 (Direct Cost: ¥1,200,000、Indirect Cost: ¥360,000)
Keywords人類学 / ゲノム / 集団構造 / 環境適応 / 琉球 / ヒト / 琉球列島 / 集団遺伝 / 琉球諸島 / 集団形成史 / 人口動態 / 遺伝的分化 / 移住 / 全ゲノム解析 / 感染症
Outline of Final Research Achievements

In this research project, I examined the possibility of adaptive evolution that occurred in Ryukyu Islanders and analyzed the whole-genome sequence to clarify how they affect the current population. As a result, it was suggested that Ryukyu Islanders are genetically differentiated by region within the archipelago, and the genetic differences between the people of Okinawa Island and the Miyako Islands had occurred around the 11th century when the Gusuku period began. We also annotated sites with high Fst values to clarify their characteristics. In the future, it will be necessary to verify the details of environmental adaptation using multiple population genetic statistics.

Academic Significance and Societal Importance of the Research Achievements

集団レベルでのヒトゲノム配列解析が行われるようになり、ヒトは地域ごとの遺伝学的特徴を持つことが明らかとなった。この特徴は彼らがたどった歴史を反映している。本州日本では縄文人と渡来系弥生人の遺伝的な混ざり合いの証拠が遺伝学や形態学研究から多く報告されているが、琉球列島ではヒトの移住や人口動態に関する研究は少なかった。すなわち、本研究成果は琉球列島人の成り立ちの理解に貢献する。また琉球列島では本州とは異なる生活習慣病の傾向や地域特異的な疾患の報告があり、この地域での個別化医療を検討する上での基礎情報を提供できる。

Report

(4 results)
  • 2020 Annual Research Report   Final Research Report ( PDF )
  • 2019 Research-status Report
  • 2018 Research-status Report
  • Research Products

    (16 results)

All 2021 2020 2019 2018 Other

All Journal Article (4 results) (of which Int'l Joint Research: 2 results,  Peer Reviewed: 4 results,  Open Access: 3 results) Presentation (11 results) (of which Int'l Joint Research: 5 results,  Invited: 3 results) Remarks (1 results)

  • [Journal Article] Paleogenomics of human remains in East Asia and Yaponesia focusing on current advances and future directions2021

    • Author(s)
      KOGANEBUCHI KAE、OOTA HIROKI
    • Journal Title

      Anthropological Science

      Volume: 129 Issue: 1 Pages: 59-69

    • DOI

      10.1537/ase.2011302

    • NAID

      130008030445

    • ISSN
      0918-7960, 1348-8570
    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Fine-scale genetic structure and demographic history in the Miyako Islands of the Ryukyu Archipelago2021

    • Author(s)
      Matsunami, M., K. Koganebuchi, M. Imamura, H. Ishida, R. Kimura, and S. Maeda
    • Journal Title

      Molecular Biology and Evolution

      Volume: 2021 Issue: 5 Pages: 2045-2056

    • DOI

      10.1093/molbev/msab005

    • NAID

      120007170568

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Biomedical and genetic characteristics of the Ryukyuans: demographic history, diseases and physical and physiological traits.2019

    • Author(s)
      K Koganebuchi and R Kimura
    • Journal Title

      Annals of Human Biology

      Volume: 印刷中 Issue: 4 Pages: 354-366

    • DOI

      10.1080/03014460.2019.1582699

    • Related Report
      2019 Research-status Report 2018 Research-status Report
    • Peer Reviewed
  • [Journal Article] A new targeted capture method using bacterial artificial chromosome (BAC) libraries as baits for sequencing relatively large genes2018

    • Author(s)
      Kae Koganebuchi, Takashi Gakuhari, Hirohiko Takeshima, Kimitoshi Sato, Kiyotaka Fujii, Toshihiro Kumabe, Satoshi Kasagi, Takehiro Sato, Atsushi Tajima, Hiroki Shibata, Motoyuki Ogawa, Hiroki Oota
    • Journal Title

      PLOS ONE

      Volume: 13 Issue: 7 Pages: 1-14

    • DOI

      10.1371/journal.pone.0200170

    • Related Report
      2018 Research-status Report
    • Peer Reviewed / Open Access
  • [Presentation] Population Genomic Insights into the Ryukyu Islanders2021

    • Author(s)
      Kae Koganebuchi
    • Organizer
      Studies in Asian and African Geolinguistics: the 2nd meeting
    • Related Report
      2020 Annual Research Report
    • Int'l Joint Research
  • [Presentation] 下戸遺伝子と琉球ゲノムで紐解くヒトの歴史2021

    • Author(s)
      小金渕佳江
    • Organizer
      東京大学理学部公開講演会
    • Related Report
      2020 Annual Research Report
    • Invited
  • [Presentation] 全ゲノム配列情報を用いた琉球列島におけるヒト移住史の推定2020

    • Author(s)
      小金渕佳江
    • Organizer
      研究会「遺伝学・言語学・考古学の成果から見る宮古諸島の人の多様性」
    • Related Report
      2020 Annual Research Report
  • [Presentation] Demographic history of the Ryukyu islanders inferred from whole-genome sequencing2019

    • Author(s)
      K Koganebuchi
    • Organizer
      The 17th Asian Bioinformatics Consortium Symposium
    • Related Report
      2019 Research-status Report
    • Int'l Joint Research / Invited
  • [Presentation] Reconstructing the population history in the Ryukyu Islands at the southern part of the Japanese Archipelago using whole-genome sequencing2019

    • Author(s)
      K Koganebuchi, M Matsunami, M Imamura, Y Kawai, K Tokunaga, S Maeda, H Ishida, R Kimura
    • Organizer
      The Asia Pacific Conference on Human Evolution
    • Related Report
      2019 Research-status Report
    • Int'l Joint Research
  • [Presentation] 琉球列島における全ゲノム配列データを用いたヒト集団史の推定2019

    • Author(s)
      小金渕 佳江、松波 雅俊、今村 美菜子、河合 洋介、徳永 勝士、前田 士郎、石田 肇、木村 亮介
    • Organizer
      第73回日本人類学会大会
    • Related Report
      2019 Research-status Report
  • [Presentation] 琉球諸島ヒト集団の成立史の推定2019

    • Author(s)
      小金渕佳江
    • Organizer
      第一回ヤポネシアゲノム若手研究集会
    • Related Report
      2018 Research-status Report
  • [Presentation] 遺伝的多型に基づく琉球諸島の人々の集団形成史2019

    • Author(s)
      小金渕佳江
    • Organizer
      新学術領域・ヤポネシアゲノム・言語班2018年度第二回研究集会
    • Related Report
      2018 Research-status Report
    • Invited
  • [Presentation] A new targeted enrichment method, “BAC-double capture,” for ancient DNA analysis2018

    • Author(s)
      Kae Koganebuchi, Takashi Gakuhari, Hirohiko Takeshima, Satoshi Kasagi, Takehiro Sato, Atsushi Tajima, Hiroki Shibata, Motoyuki Ogawa, Hiroki Oota
    • Organizer
      8th International Symposium on Biomolecular Archaeology
    • Related Report
      2018 Research-status Report
    • Int'l Joint Research
  • [Presentation] A new targeted-capture method using bacterial artificial chromosome (BAC) as baits exclusively developed for sequencing relatively large loci of ancient DNA2018

    • Author(s)
      Kae Koganebuchi, Takashi Gakuhari, Hirohiko Takeshima, Satoshi Kasagi, Takehiro Sato, Atsushi Tajima, Hiroki Shibata, Motoyuki Ogawa, Hiroki Oota
    • Organizer
      Annual Meeting of the Society for Molecular Biology and Evolution 2018
    • Related Report
      2018 Research-status Report
    • Int'l Joint Research
  • [Presentation] 東アジア特異的もやもや病リスク変異RNF213 R4810Kの拡散史の推定2018

    • Author(s)
      小金渕佳江、佐藤公俊、藤井清孝、隈部俊宏、間野修平、小川元之、太田博樹
    • Organizer
      第72回日本人類学会大会
    • Related Report
      2018 Research-status Report
  • [Remarks] Anthropological Science「ヤポネシアゲノム特集号」に掲載された6論文のご紹介

    • URL

      https://www.s.u-tokyo.ac.jp/ja/press/2021/7305/

    • Related Report
      2020 Annual Research Report

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Published: 2018-04-23   Modified: 2022-01-27  

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