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Non-invasive monitoring and biomass estimation of salmonid fish using environmental DNA

Research Project

Project/Area Number 26640136
Research Category

Grant-in-Aid for Challenging Exploratory Research

Allocation TypeMulti-year Fund
Research Field Conservation of biological resources
Research InstitutionHokkaido University

Principal Investigator

ARAKI Hitoshi  北海道大学, 農学研究院, 教授 (20707129)

Co-Investigator(Kenkyū-buntansha) 高原 輝彦  島根大学, 生物資源科学部, 助教 (10536048)
源 利文  神戸大学, 人間発達環境学研究科, 特命助教 (50450656)
Co-Investigator(Renkei-kenkyūsha) KONDO Michio  龍谷大学, 理工学部, 教授 (30388160)
DOI Hideyuki  兵庫県立大学, 大学院シミュレーション学研究科, 准教授 (80608505)
Research Collaborator SATO Shunpei  国立研究開発法人水産研究・教育機構, 北海道区水産研究所, 主任研究員 (70425461)
Project Period (FY) 2014-04-01 – 2017-03-31
Project Status Completed (Fiscal Year 2016)
Budget Amount *help
¥3,900,000 (Direct Cost: ¥3,000,000、Indirect Cost: ¥900,000)
Fiscal Year 2016: ¥1,170,000 (Direct Cost: ¥900,000、Indirect Cost: ¥270,000)
Fiscal Year 2015: ¥1,300,000 (Direct Cost: ¥1,000,000、Indirect Cost: ¥300,000)
Fiscal Year 2014: ¥1,430,000 (Direct Cost: ¥1,100,000、Indirect Cost: ¥330,000)
Keywords環境DNA / サケ科魚類 / モニタリング / サケ / 定量 / 生物量 / 環境DNA検出 / 飼育実験 / 野外調査 / 国際情報交換
Outline of Final Research Achievements

Monitoring and biomass estimation of wild organisms are of central importance in conservation biology. However, aquatic organisms are difficult to monitor because of their difficulties in catch and visual observations in the wild.
In this study, we aimed to establish a new molecular method for monitoring and biomass estimation of salmonid species in the wild. We use environmental DNA, which is defined as DNA from environmental media (e.g., water for fish), in order to identify and estimate the amount of wild organisms nearby. Results from our rearing experiments, together with our trials in rivers and the ocean, suggest that environmental DNA we detected indeed reflects the presence/absence and spatio-temporal variation in salmonid species.

Report

(4 results)
  • 2016 Annual Research Report   Final Research Report ( PDF )
  • 2015 Research-status Report
  • 2014 Research-status Report
  • Research Products

    (25 results)

All 2017 2016 2015 2014

All Journal Article (8 results) (of which Int'l Joint Research: 1 results,  Peer Reviewed: 8 results,  Open Access: 4 results,  Acknowledgement Compliant: 2 results) Presentation (17 results) (of which Int'l Joint Research: 3 results,  Invited: 5 results)

  • [Journal Article] Environmental DNA metabarcoding reveals local fish communities in a species-rich coastal sea2017

    • Author(s)
      Yamamoto, Masuda, Sato, Sado, Araki, Kondoh, Minamoto, Miya
    • Journal Title

      Scientific Reports

      Volume: 7 Issue: 1 Pages: 40368-40368

    • DOI

      10.1038/srep40368

    • NAID

      120005947171

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access / Acknowledgement Compliant
  • [Journal Article] A simple method for preserving environmental DNA in water samples at ambient temperature by addition of cationic surfactant2017

    • Author(s)
      Yamanaka, H., Minamoto, T., Matsuura, J., Sakurai, S., Tsui, S., Motozawa, H., Hongo, M., Sogo, Y., Kakimi, N., Teramura, I., Sugita, M., Baba, M., Kondo, A.
    • Journal Title

      Limnology

      Volume: 17 Issue: 2 Pages: 233-241

    • DOI

      10.1007/s10201-016-0508-5

    • NAID

      120006220788

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Environmental DNA analysis for estimating the abundance and biomass of stream fish2017

    • Author(s)
      Doi, H., Inui, R., Akamatsu, Y., Kanno, K., Yamanaka, H., Takahara, T., Minamoto, T.
    • Journal Title

      Freshwater Biology

      Volume: 62 Issue: 1 Pages: 30-39

    • DOI

      10.1111/fwb.12846

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Environmental DNA as a ‘Snapshot’ of fish distribution: a case study of Japanese Jack Mackerel in Maizuru Bay, Sea of Japan2016

    • Author(s)
      Yamamoto, Minami, Fukaya, Takahashi, Sawada, Murakami, Tsuji, Hashizume, Kubonaga, Horiuchi, Hongo, Nishida, Okugawa, Fujiwara, Fukuda, Hidaka, Suzuki, Miya, Araki, Yamanaka, Maruyama, Miyashita, Masuda, Minamoto, Kondoh
    • Journal Title

      PLoS One

      Volume: 11 Issue: 3 Pages: 1-18

    • DOI

      10.1371/journal.pone.0149786

    • NAID

      120005733220

    • Related Report
      2016 Annual Research Report 2015 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] On-site filtration of water samples for environmental DNA analysis to avoid DNA degradation during transportation2016

    • Author(s)
      Yamanaka, H., Motozawa, H., Tsuji, S., Miyazawa, R. C., Takahara, T., Minamoto, T.
    • Journal Title

      Ecological Research

      Volume: 31 Issue: 6 Pages: 963-967

    • DOI

      10.1007/s11284-016-1400-9

    • NAID

      40021004294

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Effects of water pH and proteinase K treatment on the yield of environmental DNA from water samples2016

    • Author(s)
      Tsuji, S., Yamanaka, H., Minamoto, T.
    • Journal Title

      Limnology

      Volume: 印刷中 Issue: 1 Pages: 1-7

    • DOI

      10.1007/s10201-016-0483-x

    • NAID

      40021062363

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed
  • [Journal Article] A basin-scale application of environmental DNA assessment for rare endemic species and closely related exotic species in rivers: A case study of giant salamanders in Japan2015

    • Author(s)
      FUKUMOTO Sou ; USHIMARU Atushi ; MINAMOTO Toshifumi
    • Journal Title

      Journal of Applied Ecology

      Volume: 52 Issue: 2 Pages: 358-365

    • DOI

      10.1111/1365-2664.12392

    • Related Report
      2015 Research-status Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] MiFish, a set of universal PCR primers for metabarcoding environmental DNA from fishes: detection of more than 230 subtropical marine species2015

    • Author(s)
      Masaki Miya et al.
    • Journal Title

      Royal Society open science

      Volume: 2 Issue: 7 Pages: 150088-150088

    • DOI

      10.1098/rsos.150088

    • Related Report
      2015 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Presentation] Environmental DNA as an Ecological Tool for Salmonid Fish Distribution2017

    • Author(s)
      Hitoshi Araki
    • Organizer
      日本生態学会第64回全国大会
    • Place of Presentation
      早稲田大学(東京)
    • Related Report
      2016 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Can we detect distribution and quantify biomass of Itou (Parahucho perryi) by using eDNA?2017

    • Author(s)
      Hiroki Mizumoto
    • Organizer
      日本生態学会第64回全国大会
    • Place of Presentation
      早稲田大学(東京)
    • Related Report
      2016 Annual Research Report
    • Int'l Joint Research
  • [Presentation] 見えない生物多様性を見る―環境DNA技術の可能性2017

    • Author(s)
      荒木仁志
    • Organizer
      第15回北海道海洋生物科学研究会シンポジウム
    • Place of Presentation
      北海道大学総合博物館(札幌市)
    • Related Report
      2016 Annual Research Report
    • Invited
  • [Presentation] 環境DNA分析によってどのような情報が得られるのか?2016

    • Author(s)
      源利文
    • Organizer
      日本生態学会
    • Place of Presentation
      仙台国際センター、宮城県仙台市
    • Year and Date
      2016-03-20
    • Related Report
      2015 Research-status Report
  • [Presentation] 環境DNAを用いた流水環境におけるアユの生物量の推定2016

    • Author(s)
      高原輝彦
    • Organizer
      日本生態学会
    • Place of Presentation
      仙台国際センター、宮城県仙台市
    • Year and Date
      2016-03-20
    • Related Report
      2015 Research-status Report
  • [Presentation] 環境DNA研究の実践と課題:生態学フロンティアへの挑戦2016

    • Author(s)
      荒木仁志
    • Organizer
      日本生態学会
    • Place of Presentation
      仙台国際センター、宮城県仙台市
    • Year and Date
      2016-03-20
    • Related Report
      2015 Research-status Report
  • [Presentation] サケの環境DNA研究2016

    • Author(s)
      荒木仁志
    • Organizer
      市民公開講座さーもん・かふぇ2016
    • Place of Presentation
      エスポワールいわて(盛岡市)
    • Related Report
      2016 Annual Research Report
    • Invited
  • [Presentation] 環境DNAを用いた水圏動物研究:現状と課題2016

    • Author(s)
      荒木仁志
    • Organizer
      ゲノム多様性ワークショップ
    • Place of Presentation
      北海道大学学術交流会館(札幌市)
    • Related Report
      2016 Annual Research Report
    • Invited
  • [Presentation] フィールドリサーチツールとしての環境DNA研究:現状と課題2016

    • Author(s)
      荒木仁志
    • Organizer
      魚類系統学研究会
    • Place of Presentation
      北大苫小牧研究林(苫小牧市)
    • Related Report
      2016 Annual Research Report
  • [Presentation] 環境DNAを用いた生物フロンティアの開拓2016

    • Author(s)
      荒木仁志
    • Organizer
      第18回日本進化学会大会
    • Place of Presentation
      東京工業大学(東京)
    • Related Report
      2016 Annual Research Report
    • Int'l Joint Research
  • [Presentation] 湖沼や河川に浮遊・存在するDNA断片を用いた生物モニタリング手法の開発2015

    • Author(s)
      高原輝彦
    • Organizer
      水環境フォーラム山口
    • Place of Presentation
      山口大学、山口県宇部市
    • Year and Date
      2015-09-05
    • Related Report
      2015 Research-status Report
    • Invited
  • [Presentation] 環境DNA:NGSがもたらす生態情報を進化学にどう活かすか2015

    • Author(s)
      荒木仁志
    • Organizer
      日本進化学会
    • Place of Presentation
      中央大学、東京都文京区
    • Year and Date
      2015-08-20
    • Related Report
      2015 Research-status Report
  • [Presentation] 環境DNA分析を用いた希少在来種と近縁外来種の流域スケール調査:京都府桂川のオオサンショウウオを例に2015

    • Author(s)
      福本想・丑丸敦史・源利文
    • Organizer
      日本生態学会
    • Place of Presentation
      鹿児島大学(鹿児島市)
    • Year and Date
      2015-03-18 – 2015-03-22
    • Related Report
      2014 Research-status Report
  • [Presentation] 北大農学部・動物生態学研究室紹介2014

    • Author(s)
      荒木仁志
    • Organizer
      魚類系統研究会
    • Place of Presentation
      札幌市保養センター駒岡(札幌市)
    • Year and Date
      2014-11-29
    • Related Report
      2014 Research-status Report
  • [Presentation] eDNA for investigating unrevealed aquatic biodiversity2014

    • Author(s)
      Hitoshi Araki
    • Organizer
      Unraveling biodiversity from DNA
    • Place of Presentation
      国立環境研究所(つくば市)
    • Year and Date
      2014-09-19
    • Related Report
      2014 Research-status Report
  • [Presentation] Marine fish surveys using environmental DNA2014

    • Author(s)
      Minamoto, T., Masuda, R., Takahashi, K., Maruyama, A., Yamanaka, H., Kasai, A., Kondoh, M.
    • Organizer
      Ecological Societiy of America (ESA) Annual Meeting
    • Place of Presentation
      Sacramento, California, USA
    • Year and Date
      2014-08-10 – 2014-08-15
    • Related Report
      2014 Research-status Report
  • [Presentation] ふ化放流魚と野生魚の相互作用2014

    • Author(s)
      荒木仁志
    • Organizer
      さけます関係研究開発等推進会議
    • Place of Presentation
      ホテル ライフォート札幌(札幌市)
    • Year and Date
      2014-08-06
    • Related Report
      2014 Research-status Report
    • Invited

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Published: 2014-04-04   Modified: 2018-03-22  

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