Elucidation of potential extinction factors based on the genetic structure of local populations of Pungitius kaibarae

• Project/Area Number: 18K05686
• Research Category: Grant-in-Aid for Scientific Research (C)
• Allocation Type: Multi-year Fund
• Section: 一般
• Review Section: Basic Section 39060:Conservation of biological resources-related
• Research Institution: Shinshu University
• Principal Investigator: Takata Keisuke 信州大学, 理学部, 特任准教授 (90197096)
• Co-Investigator(Kenkyū-buntansha): 高橋 洋 国立研究開発法人水産研究・教育機構, 水産大学校, 准教授 (90399650)
• Project Period (FY): 2018-04-01 – 2021-03-31
• Project Status: Completed (Fiscal Year 2020)
• Budget Amount: ¥4,420,000 (Direct Cost: ¥3,400,000、Indirect Cost: ¥1,020,000); Fiscal Year 2020: ¥1,170,000 (Direct Cost: ¥900,000、Indirect Cost: ¥270,000); Fiscal Year 2019: ¥1,430,000 (Direct Cost: ¥1,100,000、Indirect Cost: ¥330,000); Fiscal Year 2018: ¥1,820,000 (Direct Cost: ¥1,400,000、Indirect Cost: ¥420,000)
• Keywords: Pungitius kaibarae / mtDNA / ddRAD-seq / COLONY / Sequoia / Ne / PVA / mtDNA cytb / イバラトミヨ雄物型 / 絶滅確率 / 集団遺伝学的解析 / 再放流 / 局所個体群 / 遺伝的多様性 / ESU / 絶滅要因

Outline of Final Research Achievements

Genetic and ecological elucidations were performed to formulate effective conservation measures on the Ibaratomiyo Omono-type (Pungitius kaibarae) endemic populations in Yamagata. RAD-seq family analysis, which gives effective population size, and the ecological information, such as longevity, clutch size etc. were enabled to perform the population viability analysis (PVA analysis) to estimate the extinction probability for the next 100 years. It was estimated there is no dispersal among the three populations in the most recent generations. Population viability analysis based on the ecological and the genetic information revealed the three populations are at high risk of extinction from 56% to 78% within the next 100 years. These suggest that habitat management and facility breeding based on risk dispersion is necessary.

Academic Significance and Societal Importance of the Research Achievements

日本では、淡水魚類の多くは程度の差こそあれ絶滅危惧種に指定されている。本研究ではP. kaibarae種群に属するイバラトミヨ雄物型個体群を例に遺伝子解析を用いることにより、保全する際の基本情報である有効集団サイズを推定することができることを示した。これを基に個体群の絶滅確率を的確に予測することができるようになった。
これまで保全活動を行う際に、絶滅という最悪の状態がどの程度起こりうるかを客観的に示すことが難しかった。遺伝的集団構造の解明および生態学的データや環境変動データを用いた百年単位での絶滅確率の推定を組み合わせることにより、保全対象個体群の状況を客観的に示すことができるようになった。

Research Products

• [Journal Article] First report of natural hybridization between two yellowtails, Seriola quinqueradiata and S. lalandi. (2021)
  • Author(s): Hiroshi Takahashi, Taiki Kurogoushi, Ryo Shimoyama, Hiroyuki Yoshikawa
  • Journal Title: Ichthyological Research Volume: 68 Issue: 1 Pages: 139-144
  • DOI: 10.1007/s10228-020-00752-8
  • NAID: 40022462106
  • Peer Reviewed
• [Journal Article] Genome-wide patterns of divergence and introgression after secondary contact between Pungitius sticklebacks (2020)
  • Author(s): Yamasaki Yo Y.、Kakioka Ryo、Takahashi Hiroshi、Toyoda Atsushi、Nagano Atsushi J.、Machida Yoshiyasu、M?ller Peter R.、Kitano Jun
  • Journal Title: Philosophical Transactions of the Royal Society B: Biological Sciences Volume: 375 Issue: 1806 Pages: 20190548-20190548
  • DOI: 10.1098/rstb.2019.0548
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Examination of unidentifiable spined loach individuals found in overlapping zones of two tetraploid species within a single river in Japan (2020)
  • Author(s): M. Ishihara, K. Morita, Y. Iguchi, K. Takaku, K. Takata, T. Kitagawa
  • Journal Title: Journal of Applied Ichthyology Volume: 36 Issue: 5 Pages: 668-674
  • DOI: 10.1111/jai.14081
  • Peer Reviewed
• [Journal Article] A key metabolic gene for recurrent freshwater colonization and radiation in fishes (2019)
  • Author(s): Ishikawa Asano, Kabeya Naoki, Ikeya Koki, Kakioka Ryo, Cech Jennifer N., Osada Naoki, Leal Miguel C., Inoue Jun, Kume Manabu, Toyoda Atsushi, Tezuka Ayumi, Nagano Atsushi J., Yamasaki Yo Y., Suzuki Yuto, Kokita Tomoyuki, Takahashi Hiroshi et al.
  • Journal Title: Science Volume: 364 Issue: 6443 Pages: 886-889
  • DOI: 10.1126/science.aau5656
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Presentation] Multiple paths to the same goal: the repeated use of hotspot genes for convergent plate reduction in sticklebacks (2021)
  • Author(s): Yo Yamasaki, Tomoyuki Kokita, Koki Kato, Asato Irifune, Mitsuki Kuroda, Hiroshi Takahashi, Yoshiyasu Machida, Asano Ishikawa, Mikiko Tanaka, Seiichi Mori, Atsushi Toyoda, Jun Kitano
  • Organizer: The 68th Annual Meeting of the Ecological Society of Japan (ESJ67)
  • Int'l Joint Research
• [Presentation] Molecular diagnostic methods for identifying pufferfish species and their hybrid to prevent pufferfish poisoning (2020)
  • Author(s): Hiroshi Takahashi
  • Organizer: The 35th Annual Meeting of the Korean Society of Food Hygiene and Safety
  • Int'l Joint Research / Invited
• [Presentation] トゲウオ科魚類における形態の収斂進化の遺伝基盤 (2019)
  • Author(s): 柿岡 諒・北野 潤・石川麻乃・永野 惇・八杉公基・髙橋 洋
  • Organizer: 日本進化学会第21会大会