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Environmental DNA survey for endemic and exotic giant salamanders by cooperation with citizen scientists

Research Project

Project/Area Number 26440238
Research Category

Grant-in-Aid for Scientific Research (C)

Allocation TypeMulti-year Fund
Section一般
Research Field Ecology/Environment
Research InstitutionKobe University

Principal Investigator

Minamoto Toshifumi  神戸大学, 人間発達環境学研究科, 特命助教 (50450656)

Research Collaborator TOMITA Sei  
HIDAKA Shunsuke  
FUKUMOTO Sou  
Project Period (FY) 2014-04-01 – 2017-03-31
Project Status Completed (Fiscal Year 2016)
Budget Amount *help
¥5,070,000 (Direct Cost: ¥3,900,000、Indirect Cost: ¥1,170,000)
Fiscal Year 2016: ¥1,430,000 (Direct Cost: ¥1,100,000、Indirect Cost: ¥330,000)
Fiscal Year 2015: ¥1,560,000 (Direct Cost: ¥1,200,000、Indirect Cost: ¥360,000)
Fiscal Year 2014: ¥2,080,000 (Direct Cost: ¥1,600,000、Indirect Cost: ¥480,000)
Keywords環境DNA / リアルタイムPCR / オオサンショウウオ / 河川 / 市民科学 / チュウゴクオオサンショウウオ / 保全 / 環境教育 / 科学教育 / 保全生態学
Outline of Final Research Achievements

Detection method of environment DNA (eDNA) of Japanese giant salamander (Andrias japonicus), a special natural treasure of Japan, was established, and a detection test was conducted in rivers in Western Japan. As a result of investigating at 331 sites in the 12 rivers, eDNA of Japanese giant salamander was detected at 111 sites. Based on this result, we created an ecological niche model. The model almost matched the known distribution of the species, showing the possibility of niche modeling for rare species based on environmental DNA analysis. In the process of research, we collaborated with civic groups and high school students, and it became clear that meaningful collaboration is possible for each other.

Report

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

    (51 results)

All 2017 2016 2015 2014

All Journal Article (23 results) (of which Peer Reviewed: 18 results,  Open Access: 15 results,  Acknowledgement Compliant: 2 results) Presentation (28 results) (of which Int'l Joint Research: 5 results,  Invited: 7 results)

  • [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] Nuclear internal transcribed spacer-1 as a sensitive genetic marker for environmental DNA studies in common carp Cyprinus carpio2017

    • Author(s)
      Minamoto, T., Uchii, K., Takahara, T., Kitayoshi, T., Tsuji, S., Yamanaka, H., Doi, H.
    • Journal Title

      Molecular Ecology Resources

      Volume: 17 Issue: 2 Pages: 324-333

    • DOI

      10.1111/1755-0998.12586

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access
  • [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] 環境DNA分析の手法開発の現状 -淡水域の研究事例を中心にして-2016

    • Author(s)
      高原輝彦・山中裕樹・源利文・土居秀幸・内井喜美子
    • Journal Title

      日本生態学会誌

      Volume: 66 Pages: 583-599

    • NAID

      130006778156

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] 環境DNA分析の野外調査への展開2016

    • Author(s)
      山中裕樹・源利文・高原輝彦・内井喜美子・土居秀幸
    • Journal Title

      日本生態学会誌

      Volume: 66 Pages: 601-611

    • NAID

      130006778146

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] 在来希少種カワバタモロコの環境DNAによる検出系の確立2016

    • Author(s)
      福岡有紗・高原輝彦・松本宗弘・兵庫県立農業高校生物部・丑丸敦史・源利文
    • Journal Title

      日本生態学会誌

      Volume: 66 Pages: 613-620

    • NAID

      130006778145

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] 環境DNA分析:新しい水棲生物分布調査法2016

    • Author(s)
      内井喜美子・源利文・土居秀幸・高原輝彦・山中裕樹・片野泉
    • Journal Title

      日本生態学会誌

      Volume: 66 Pages: 581-582

    • Related Report
      2016 Annual Research Report
    • Open Access
  • [Journal Article] 環境DNA分析のさらなる進展にむけて2016

    • Author(s)
      源利文・内井喜美子・山中裕樹・高原輝彦・片野泉・土居秀幸
    • Journal Title

      日本生態学会誌

      Volume: 66 Pages: 621-623

    • NAID

      130006778144

    • Related Report
      2016 Annual Research Report
    • Open Access
  • [Journal Article] 環境DNA分析手法による高校生研究活動への支援2016

    • Author(s)
      源利文・伊藤真之・蛯名邦禎
    • Journal Title

      日本科学教育学会研究会研究報告

      Volume: 30 Pages: 21-24

    • NAID

      130006655903

    • Related Report
      2016 Annual Research Report
    • Open Access
  • [Journal Article] 市民による科学情報読み解きへの支援 -「IPCCレポートを根掘り葉掘り読む会」-2016

    • Author(s)
      蛯名邦禎・伊藤真之・梅村界渡・源利文
    • Journal Title

      日本科学教育学会研究会研究報告

      Volume: 30 Pages: 17-20

    • NAID

      130006655906

    • Related Report
      2016 Annual Research Report
    • 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] Evaluation of the environmental DNA method for estimating distribution and biomass of submerged aquatic plants2016

    • Author(s)
      Matsuhashi, S., Doi, H., Fujiwara, A., Watanabe, S., Minamoto, T.
    • Journal Title

      PLOS ONE

      Volume: 11 Issue: 6 Pages: e0156217-e0156217

    • DOI

      10.1371/journal.pone.0156217

    • NAID

      120006220786

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Use of environmental DNA to survey the distribution of an invasive submerged plant in pond2016

    • Author(s)
      Fujiwara, A., Matsuhashi, S., Doi, H., Yamamoto, S., Minamoto, T.
    • Journal Title

      Freshwater Science

      Volume: 35 Issue: 2 Pages: 748-754

    • DOI

      10.1086/685882

    • NAID

      120006220785

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Techniques for the practical collection of environmental DNA: filter selection, preservation, and extraction2016

    • Author(s)
      Minamoto, T., Naka, T. Moji, K and Maruyama, A.
    • Journal Title

      Limnology

      Volume: 17 Issue: 1 Pages: 23-32

    • DOI

      10.1007/s10201-015-0457-4

    • NAID

      40020699468

    • Related Report
      2015 Research-status Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] The use of environmental DNA of fishes as an efficient method of determining habitat connectivity2016

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

      Ecological Indicators

      Volume: 62 Pages: 147-153

    • DOI

      10.1016/j.ecolind.2015.11.022

    • Related Report
      2015 Research-status Report
    • Peer Reviewed
  • [Journal Article] A novel environmental DNA approach to quantify the cryptic invasion of non-native genotypes2016

    • Author(s)
      Uchii, K., Doi, H. and Minamoto, T.
    • Journal Title

      Molecular Ecology Resources

      Volume: 16 Issue: 2 Pages: 415-422

    • DOI

      10.1111/1755-0998.12460

    • Related Report
      2015 Research-status 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
      2015 Research-status Report
    • Peer Reviewed
  • [Journal Article] Preliminary experiment for detection method of fish inhabiting agricultural drainage canals using environmental DNA2015

    • Author(s)
      Koizumi, N., Takahara, T., Minamoto, T., Doi, H., Mori, A., Watanabe, K. and Takemura, T.
    • Journal Title

      Irrigation, Drainage and Rural Engineering Journal

      Volume: 297

    • NAID

      130005075176

    • Related Report
      2015 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] The Release Rate of Environmental DNA from Juvenile and Adult Fish.2015

    • Author(s)
      Maruyama, A., Nakamura, K., Yamanaka, H., Kondoh, and M., Minamoto, T.
    • Journal Title

      PLoS ONE

      Volume: 9 Issue: 12 Pages: e114639-e114639

    • DOI

      10.1371/journal.pone.0114639

    • NAID

      120006220782

    • Related Report
      2014 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] Use of droplet digital PCR for estimation of fish abundance and biomass in environmental DNA surveys2015

    • Author(s)
      DOI Hiedeyuki ; UCHII Kimiko ; TAKAHARA Teruhiko ; MATSUHASHI Saeko ; YAMANAKA Hiroki ; MINAMOTO Toshifumi
    • Journal Title

      PLOS ONE

      Volume: 10 Issue: 3 Pages: e0122763-e0122763

    • DOI

      10.1371/journal.pone.0122763

    • NAID

      120006220783

    • Related Report
      2014 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] Effects of sample processing on the detection rate of environmental DNA from the Common Carp (Cyprinus carpio)2015

    • Author(s)
      TAKAHARA Teruhiko ; MINAMOTO Toshifumi ; Doi Hideyuki
    • Journal Title

      Biological Conservation

      Volume: 183 Pages: 64-69

    • DOI

      10.1016/j.biocon.2014.11.014

    • Related Report
      2014 Research-status Report
    • Peer Reviewed / Open Access
  • [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
      2014 Research-status Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] 環境DNA:エコヘルス研究の新しいツール2014

    • Author(s)
      源利文
    • Journal Title

      医学のあゆみ

      Volume: 249 Pages: 1264-1269

    • Related Report
      2014 Research-status Report
  • [Presentation] 環境中のDNA情報を利用した 生物相調査手法の開発と実践2017

    • Author(s)
      源利文
    • Organizer
      日本畜産学会第122回大会
    • Place of Presentation
      神戸大学
    • Year and Date
      2017-03-28
    • Related Report
      2016 Annual Research Report
    • Invited
  • [Presentation] ユニバーサルプライマーを用いたサンショウウオ属(Hynobius)の環境DNA検出2017

    • Author(s)
      冨田勢 ; 神松幸弘 ; 山中裕樹 ; 永野昌博 ; 佐藤拓哉 ; 高原輝彦 ; 沢田隼 ; 勝原光希 ; 源利文
    • Organizer
      第64回日本生態学会大会
    • Place of Presentation
      早稲田大学
    • Year and Date
      2017-03-14
    • Related Report
      2016 Annual Research Report
  • [Presentation] 環境DNA分析手法に基づいて作成した生息適地モデルの評価ーオオサンショウウオ(Andrial japonicus)を例にー2017

    • Author(s)
      日高舜介 ; 勝原光希 ; 富田勢 ; 丑丸敦史 ; 山本哲史 ; 源利文
    • Organizer
      第64回日本生態学会大会
    • Place of Presentation
      早稲田大学
    • Year and Date
      2017-03-14
    • Related Report
      2016 Annual Research Report
  • [Presentation] 兵庫県篠山市の河川における希少魚種の環境DNA検出2017

    • Author(s)
      河野健 ; 清野未恵子 ; 丹羽英之 ; 篠谷和彦 ; 田井彰人 ; 坂田雅之 ; 源利文
    • Organizer
      第64回日本生態学会大会
    • Place of Presentation
      早稲田大学
    • Year and Date
      2017-03-14
    • Related Report
      2016 Annual Research Report
  • [Presentation] 環境DNA分析を用いた生物多様性調査法の進展と応用可能性2017

    • Author(s)
      源利文
    • Organizer
      第64回日本生態学会大会
    • Place of Presentation
      早稲田大学
    • Year and Date
      2017-03-14
    • Related Report
      2016 Annual Research Report
    • Invited
  • [Presentation] Environmental DNA anlysis: introduction and some examples of target species detection2016

    • Author(s)
      MINAMOTO Toshifumi
    • Organizer
      The 5th Japan-Taiwan Ecology Workshop
    • Place of Presentation
      Ryukoku Univeristy
    • Year and Date
      2016-11-13
    • Related Report
      2016 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] ユニバーサルプライマーを用いたサンショウウオ類の環境DNA検出2016

    • Author(s)
      冨田勢 ; 神松幸弘 ; 山中裕樹 ; 永野昌博 ; 佐藤拓哉 ; 高原輝彦 ; 沢田隼 ; 源利文
    • Organizer
      第81回日本陸水学会大会
    • Place of Presentation
      琉球大学
    • Year and Date
      2016-11-03
    • Related Report
      2016 Annual Research Report
  • [Presentation] 環境DNAを用いたオオサンショウウオの生息適地モデルの作成と評価2016

    • Author(s)
      日高舜介 ; 勝原光希 ; 富田勢 ; 丑丸敦史 ; 山本哲史 ; 源利文
    • Organizer
      第81回日本陸水学会大会
    • Place of Presentation
      琉球大学
    • Year and Date
      2016-11-03
    • Related Report
      2016 Annual Research Report
  • [Presentation] 環境DNA分析の現状と課題2016

    • Author(s)
      源利文
    • Organizer
      第81回日本陸水学会大会
    • Place of Presentation
      琉球大学
    • Year and Date
      2016-11-03
    • Related Report
      2016 Annual Research Report
  • [Presentation] Estimating the distribution of the Japanese giant salamander (Andrias japonicus) by ecological niche modeling based on environmental DNA detection2016

    • Author(s)
      MINAMOTO Toshifumi ; HIDAKA Shunsuke ; KATSUHARA Koki ; TOMITA Sei ; YAMAMOTO Satoshi ; USHIMARU Atushi
    • Organizer
      Ecological Society of America Annual Meeting 2016
    • Place of Presentation
      Greater Fort Lauderdale/Broward County Convention Center
    • Year and Date
      2016-08-07
    • Related Report
      2016 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Environmental DNA analysis provides "snapshots" of species distribution2016

    • Author(s)
      MINAMOTO Toshifumi
    • Organizer
      nternational symposium on alternative stable states: a unifying concept in global change ecology
    • Place of Presentation
      Kyoto University
    • Year and Date
      2016-07-28
    • Related Report
      2016 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Application of environmental DNA analysis to ecological surveysMINAMOTO Toshifumi2016

    • Author(s)
      MINAMOTO Toshifumi
    • Organizer
      International Symposium of Probiotics Application on Aquaculture
    • Place of Presentation
      National Kao Hsiung Marine Uiversity
    • Year and Date
      2016-07-13
    • Related Report
      2016 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] 環境DNA分析手法を用いたオオサンショウウオ(Andrias japonicus)の広域調査2016

    • Author(s)
      日髙舜介, 勝原光希, 冨田勢, 丑丸敦史, 源利文
    • Organizer
      第63回日本生態学会大会
    • 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
      第63回日本生態学会大会
    • 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
    • Invited
  • [Presentation] 新たな環境DNAマーカーとしての核DNAの利用2015

    • Author(s)
      源利文, 高原輝彦, 北吉匠文, 辻冴月, 山中裕樹, 内井喜美子, 土居秀幸
    • Organizer
      日本陸水学会第80回大会
    • Place of Presentation
      北海道大学函館キャンパス(北海道・函館市)
    • Year and Date
      2015-09-26
    • Related Report
      2015 Research-status Report
  • [Presentation] 水を汲むだけで生物分布がわかる?環境DNA 手法の開発と実践2015

    • Author(s)
      源利文
    • Organizer
      第30回環境計量技術事例発表会
    • Place of Presentation
      ANAクラウンプラザホテル神戸(兵庫県・神戸市)
    • Year and Date
      2015-07-03
    • Related Report
      2015 Research-status Report
    • Invited
  • [Presentation] Environmental DNA assessment of rare endemic species and closely related exotic species: a case study of giant salamanders in Japan2015

    • Author(s)
      Minamoto, T., Fukumoto, S, Hidaka, S. and Ushimaru, A.
    • Organizer
      2015 Society of Wetland Scientist Annual Meeting
    • Place of Presentation
      Providence (USA)
    • Year and Date
      2015-05-31
    • Related Report
      2015 Research-status Report
    • Int'l Joint Research
  • [Presentation] eDNA解析による舞鶴湾におけるマアジ資源量の推定2015

    • Author(s)
      山本哲史・南憲吏・深谷肇一・益田玲爾・宮下和士・近藤倫生・源利文
    • Organizer
      日本生態学会第62回全国大会
    • 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] 環境DNAを用いたクラゲ類の分布調査~舞鶴湾のアカクラゲを例に~2015

    • Author(s)
      福田向芳・益田玲爾・藤原綾香・山本哲史・源利文
    • Organizer
      日本生態学会第62回全国大会
    • 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] 環境DNAとマルチプレックスPCRを用いた複数魚種の同時検出2015

    • Author(s)
      福岡有紗・丑丸敦史・源利文
    • Organizer
      日本生態学会第62回全国大会
    • 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] 環境DNA手法の新たな展開~沈水植物の検出法の開発~2015

    • Author(s)
      藤原綾香・松橋彩衣子・土居秀幸・源利文
    • Organizer
      日本生態学会第62回全国大会
    • 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] 環境DNAの正体を探る:挙動の分析と観察によるアプローチ2015

    • Author(s)
      橋爪裕宜・源利文
    • Organizer
      日本生態学会第62回全国大会
    • 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] 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
      日本生態学会第62回全国大会
    • 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] A basin-scale application of environmental DNA assessment for rare endemic and exotic giant salamander species in Japan2014

    • Author(s)
      Minamoto, T., Fukumoto, S., Ushimaru, A
    • Organizer
      Joint 2014 Annual Meeting British Ecological Society and Société Française d’Ecologie
    • Place of Presentation
      Lille, France
    • Year and Date
      2014-12-09 – 2014-12-12
    • Related Report
      2014 Research-status Report
  • [Presentation] Assessment of the effect of artificial obstructions on fish migration in a river using environmental DNA2014

    • Author(s)
      Yamanaka, H., Minamoto, T.
    • Organizer
      Joint 2014 Annual Meeting British Ecological Society and Société Française d’Ecologie
    • Place of Presentation
      Lille, France
    • Year and Date
      2014-12-09 – 2014-12-12
    • Related Report
      2014 Research-status Report
  • [Presentation] 環境 DNA 手法の希少生物種調査への応用:兵庫県下のため池におけるカワバタモロコの分布調査2014

    • Author(s)
      源利文・福岡有紗・高原輝彦・兵庫県立農業高校生物部
    • Organizer
      日本陸水学会第79回大会
    • Place of Presentation
      筑波大学(つくば市)
    • Year and Date
      2014-09-10 – 2014-09-13
    • Related Report
      2014 Research-status Report
  • [Presentation] Monitoring upstream migration of fish using environmental DNA: Towards a more efficient method for assessing habitat connectivity2014

    • Author(s)
      Yamanaka, H., Minamoto, T.
    • Organizer
      2014 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] Marine fish surveys using environmental DNA2014

    • Author(s)
      Minamoto, T., Masuda, R., Takahashi, K., Maruyama, A., Yamanaka, H., Kasai, A., Kondoh, M.
    • Organizer
      2014 ESA Annual Meeting
    • Place of Presentation
      Sacramento, California, USA
    • Year and Date
      2014-08-10 – 2014-08-15
    • Related Report
      2014 Research-status Report

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

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