Reconstruction of marine fishery resource transitions using environmental DNA analysis of submarine cores

• Project/Area Number: 17K19281
• Research Category: Grant-in-Aid for Challenging Research (Exploratory)
• Allocation Type: Multi-year Fund
• Research Field: Forestry and Forest Products Science, Applied aquatic science, and related fields
• Research Institution: The University of Tokyo
• Principal Investigator: Kuroki Mari 東京大学, 大学院農学生命科学研究科(農学部), 助教 (00568800)
• Project Period (FY): 2017-06-30 – 2020-03-31
• Project Status: Completed (Fiscal Year 2019)
• Budget Amount: ¥6,500,000 (Direct Cost: ¥5,000,000、Indirect Cost: ¥1,500,000); Fiscal Year 2019: ¥1,170,000 (Direct Cost: ¥900,000、Indirect Cost: ¥270,000); Fiscal Year 2018: ¥1,300,000 (Direct Cost: ¥1,000,000、Indirect Cost: ¥300,000); Fiscal Year 2017: ¥4,030,000 (Direct Cost: ¥3,100,000、Indirect Cost: ¥930,000)
• Keywords: 漁業資源 / 海底コア / 環境DNA / 海底堆積物コア

Outline of Final Research Achievements

To develop a method for reconstructing historical changes in fishery resources based on eDNA metabarcoding of sea sediment cores, sampling surveys were carried out to collect fishes with a beam trawl net, seawater, and bottom sediment cores in Tokyo Bay, where a long-term benthic ichthyofauna monitoring survey has been conducted. The eDNA metabarcoding detected about 90 fish taxa in the water samples, which is a greater number of species compared to the fish species collected during the 34-years trawling surveys. It was revealed that the pelagic fish and reef fish species were only detected by the eDNA metabarcoding, but the detection sensitivity of eDNA was low for cartilaginous fish. The eDNA of fish taxa was detected from the surface to a depth of several tens of centimeters of the sediment core, suggesting that eDNA might be preserved for a long time considering the sedimentation rate in Tokyo Bay.

Academic Significance and Societal Importance of the Research Achievements

東京湾をモデル調査水域に選定し、魚類相の経年変化のデータベースと環境DNA 分析の結果を対照した結果、高い検出力をもつ環境DNAは魚類相推定に有用な手法であることが明らかとなった。本手法を適用することで、調査船の大がかりな採集調査に費やす労力や費用を削減でき、種査定の専門知識や経験のない研究者でも応用可能なことから、学術的価値は高いと位置づけられる。また、環境DNA分析を適用することにより、これまで漁具を用いた採集調査で出現記録のなかった広範な分類群の魚類が網羅的に検出され、希少種や外来種の存在も効率的に把握できたことから、海洋生態系の保全管理にも役立つと考えられる。

Research Products

• [Journal Article] Contrasting biodiversity of eel larvae across the central Indian Ocean subtropical gyre (2018)
  • Author(s): Miller, M.J., Wouthuyzen, S., Feunteunm E., Aoyama, J., Watanabe, S., Syahailatua, A., Kuroki, M., Robinet, T., Hagihara, S., Otake, T., Tsukamoto, K.
  • Journal Title: Deep-Sea Research Part II Volume: 印刷中 Pages: 120-131
  • DOI: 10.1016/j.dsr2.2018.02.012
  • Peer Reviewed / Int'l Joint Research
• [Journal Article] Vertical distribution and assemblage structure of leptocephali in the North Equatorial Current region of the western Pacific (2017)
  • Author(s): Onda, H., Miller, M.J., Takeshige, A., Miyake, Y., Kuroki, M., Aoyama, J., Kimura, S.
  • Journal Title: Marine Ecological Progress Series Volume: 575 Pages: 119-136
  • Peer Reviewed
• [Presentation] 東京湾における環境DNAメタバーコーディング法と漁獲調査による魚類相推定との比較 (2020)
  • Author(s): 小林龍史，児玉圭太，堀口敏宏，佐土哲也，宮正樹，山川卓，黒木真理
  • Organizer: 日本水産学会春季大会
• [Presentation] 都市型河川における外来種モニタリングへのeDNAメタバーコーディング手法の応用 (2020)
  • Author(s): 水田颯生，黒木真理，佐土哲也，宮正樹，山川卓
  • Organizer: 日本水産学会春季大会
• [Presentation] 東京湾における底棲魚介類群集と環境因子の長期変動（1977～2018年） (2019)
  • Author(s): 児玉圭太，黒木真理，山川 卓，清水 誠，堀口敏宏
  • Organizer: 日本水産学会
• [Presentation] 環境DNA分析を利用した多摩川水系におけるウナギ分布調査 (2018)
  • Author(s): 水田颯生, 黒木真理, 山川卓
  • Organizer: 環境DNA学会
• [Presentation] 環境DNAで探るニホンウナギ産卵生態の謎 (2018)
  • Author(s): 竹内 綾, 渡邊 俊, 山田祥朗, 岡村明浩, 堀江則行, 三河直美, 黒木真理, 沖野龍文, 三輪哲也, Michael J. Miller, 小島隆人, 塚本勝巳
  • Organizer: 環境DNA学会
• [Presentation] 多摩川水系におけるニホンウナギの資源生態：環境 DNA による分布推定と形態 (2018)
  • Author(s): 水田颯生，黒木真理, 山川 卓
  • Organizer: 東アジア鰻学会研究発表会
• [Presentation] Distribution and early life history of anguillid eel leptocephali in the tropical western Pacific and South Pacific Ocean (2017)
  • Author(s): Kuroki, M. , Miller M.J., Feunteun, E., Sasal, P., Pickering, T, Han Y.-S., Mochioka, N., Faliex, E., Acou, A., Dessier, A., Schabetsberger, R., Kawakami, T., Onda, H., Hewavitarane, C.A., Watanabe, S., Higuchi, T., Takeuchi, A., Shimizu, M., Taka, T., Yamakawa, T., Kimura, S., Tsukamoto, K., Otake, T.
  • Organizer: 10th Indo-Pacific Fish Conference
  • Int'l Joint Research
• [Presentation] Field surveys, research, and outreach activities for public awareness of the conservation of diadromous fishe (2017)
  • Author(s): Kuroki, M.
  • Organizer: 10th Indo-Pacific Fish Conference
  • Int'l Joint Research