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Phylogeographic history and local adaptation in Japanese macaques: application of population genomics and morphometrics

Research Project

Project/Area Number 19K16211
Research Category

Grant-in-Aid for Early-Career Scientists

Allocation TypeMulti-year Fund
Review Section Basic Section 45030:Biodiversity and systematics-related
Research InstitutionKyoto University

Principal Investigator

Ito Tsuyoshi  京都大学, 霊長類研究所, 助教 (20711485)

Project Period (FY) 2019-04-01 – 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: ¥2,210,000 (Direct Cost: ¥1,700,000、Indirect Cost: ¥510,000)
Fiscal Year 2019: ¥1,950,000 (Direct Cost: ¥1,500,000、Indirect Cost: ¥450,000)
Keywords系統地理 / 生態ニッチモデリング / 集団遺伝 / ゲノム / コンピュータ断層撮影 / 集団史 / 進化量的遺伝学 / 形態
Outline of Research at the Start

本研究は、屋久島から下北半島に至る広範な環境に分布するニホンザルを対象に、核ゲノムの多数の遺伝マーカーを用いた解析を行い、地域集団間の遺伝的交流を含めた集団史と系統を高解像度に推定する。また、集団史と系統の影響を考慮に入れることで、頭蓋の形態に見られる地理的変異の再評価を行い、その形成に自然選択が働いた可能性を検証する。さらに、ゲノムワイド環境関連解析と外れ値検定により、寒冷地への進出に伴った適応遺伝子候補を検出する。

Outline of Final Research Achievements

In this study we investigated the geographic patterns of genetic variation in Japanese macaques and the processes that underlie them. Japanese macaques show a sister group relationship with a clade comprising Chinese rhesus, Indian rhesus, and Taiwanese macaques. Japanese macaques comprise major northeastern and southwestern clades, with a boundary located near central Japan, and gene flow between the northeastern and southwestern lineages was detected. Refugia during the LGM were estimated to be distributed in limited areas along the south coasts of the Japanese archipelago. Phylogeographic variation of Japanese macaques is likely due mainly to northeastーsouthwest divergence, which resulted from withdrawal into refugia during the glacial period, and subsequent gene flow.

Academic Significance and Societal Importance of the Research Achievements

高い地域多様性と固有性を併せ持つ日本列島の動植物は、生物地理学的に重要な研究対象として世界的に注目を集め、これまでにも多くの知見が蓄積されてきたが、比較的短期間に起こったとされる地域集団間の分岐と交流、日本列島の多様な環境に対する適応進化のプロセスについては、十分に理解されていなかった。本研究の成果は、日本列島における動物の地理的多様性の形成過程に関する理解の一助となるとともに、ニホンザルの地域集団の保全にも役立つことが期待される。

Report

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

    (6 results)

All 2021 2020 2019

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

  • [Journal Article] Phylogeographic history of Japanese macaques2021

    • Author(s)
      Ito Tsuyoshi、Hayakawa Takashi、Suzuki-Hashido Nami、Hamada Yuzuru、Kurihara Yosuke、Hanya Goro、Kaneko Akihisa、Natsume Takayoshi、Aisu Seitaro、Honda Takeaki、Yachimori Syuji、Anezaki Tomoko、Omi Toshinori、Hayama Shin‐ichi、Tanaka Mikiko、Wakamori Hikaru、Imai Hiroo、Kawamoto Yoshi
    • Journal Title

      Journal of Biogeography

      Volume: online Issue: 6 Pages: 1-12

    • DOI

      10.1111/jbi.14087

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Secondary contact and genomic admixture between rhesus and long‐tailed macaques in the Indochina Peninsula2020

    • Author(s)
      Ito Tsuyoshi、Kanthaswamy Sreetharan、Bunlungsup Srichan、Oldt Robert F.、Houghton Paul、Hamada Yuzuru、Malaivijitnond Suchinda
    • Journal Title

      Journal of Evolutionary Biology

      Volume: 33 Issue: 9 Pages: 1164-1179

    • DOI

      10.1111/jeb.13681

    • NAID

      120006942806

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Effects of different segmentation methods on geometric morphometric data collection from primate skulls2019

    • Author(s)
      Ito Tsuyoshi
    • Journal Title

      Methods in Ecology and Evolution

      Volume: 10 Issue: 11 Pages: 1972-1984

    • DOI

      10.1111/2041-210x.13274

    • NAID

      120006940255

    • Related Report
      2019 Research-status Report
    • Peer Reviewed
  • [Journal Article] Phenotypic plasticity in the mandibular morphology of Japanese macaques: captive?wild comparison2019

    • Author(s)
      Kamaluddin Siti Norsyuhada、Tanaka Mikiko、Wakamori Hikaru、Nishimura Takeshi、Ito Tsuyoshi
    • Journal Title

      Royal Society Open Science

      Volume: 6 Issue: 7 Pages: 181382-181382

    • DOI

      10.1098/rsos.181382

    • NAID

      120006716598

    • Related Report
      2019 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Presentation] 核ゲノムの系統から見直すニホンザルの形態変異と進化史2019

    • Author(s)
      伊藤毅, 早川卓志, 橋戸南美, 田中美希子, 濱田穣, 栗原洋介, 半谷吾郎, 兼子明久, 夏目尊好, 愛洲星太郎, 本田剛章, 谷地森秀二, 姉崎智子, 新宅勇太, 近江俊徳, 羽山伸一, 今井啓雄, 若森参, 川本芳
    • Organizer
      日本進化学会第21回大会
    • Related Report
      2019 Research-status Report
  • [Presentation] ゲノムワイドSNPを利用した和歌山タイワンザル交雑個体群の集団史推定2019

    • Author(s)
      伊藤毅, 木村亮介, 濱田穣, 若森参, 手塚あゆみ, 永野惇, 川本芳
    • Organizer
      第35回日本霊長類学会大会
    • Related Report
      2019 Research-status Report

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Published: 2019-04-18   Modified: 2022-01-27  

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