Development of an isolation method of microsatellite DNA markers for evaluation of genetic diversity of organisms in rural areas

• Project/Area Number: 23580340
• Research Category: Grant-in-Aid for Scientific Research (C)
• Allocation Type: Multi-year Fund
• Section: 一般
• Research Field: Irrigation, drainage and rural engineering/Rural planning
• Research Institution: National Agriculture and Food Research Organization
• Principal Investigator: KOIZUMI Noriyuki 独立行政法人農業・食品産業技術総合研究機構, 農村工学研究所・資源循環工学研究領域, 主任研究員 (60301222)
• Project Period (FY): 2011 – 2013
• Project Status: Completed (Fiscal Year 2013)
• Budget Amount: ¥5,200,000 (Direct Cost: ¥4,000,000、Indirect Cost: ¥1,200,000); Fiscal Year 2013: ¥1,560,000 (Direct Cost: ¥1,200,000、Indirect Cost: ¥360,000); Fiscal Year 2012: ¥2,080,000 (Direct Cost: ¥1,600,000、Indirect Cost: ¥480,000); Fiscal Year 2011: ¥1,560,000 (Direct Cost: ¥1,200,000、Indirect Cost: ¥360,000)
• Keywords: マイクロサテライトDNA / 遺伝子多様性 / 農村生態系 / 遺伝的多様性 / DNA

Research Abstract

An isolation method of microsatellite DNA markers was developed for the evaluation of genetic diversity of organisms inhabiting rural areas. This method was composed of five processes such as DNA extraction, DNA fragmentation, screening of microsatellite regions, etc. Applying this method, nineteen to forty of novel microsatellite DNA markers were isolated and characterized for seven species of fish, dragonfly and mysid collected from agricultural canals. Furthermore, these markers were available for practical analysis of their genetic diversity and the structures of their populations. The development of the markers for other species based on this method and the investigation of genetic diversity using the developed markers are expected in the near future.

Research Products

• [Journal Article] Characterization of twenty-four polymorphic microsatellite loci of Rasbora borapetensis (2013)
  • Author(s): Koizumi, N., Morioka, S., Mori, A.(他5名)
  • Journal Title: Conservation Genetics Resources Volume: 5 Issue: 3 Pages: 711-71
  • DOI: 10.1007/s12686-013-9888-6
  • Peer Reviewed
• [Journal Article] Development of nineteen novel polymorphic microsatellite loci of Clupeichthys aesarnensis (2013)
  • Author(s): Koizumi, N., Morioka, S., Mori, A.(他5名)
  • Journal Title: Conservation Genetics Resources Volume: 5 Issue: 3 Pages: 707-709
  • DOI: 10.1007/s12686-013-9887-7
  • Peer Reviewed
• [Journal Article] Thirty-two polymorphic microsatellite loci of the mysid crustacean Mesopodopsis tenuipes. (2013)
  • Author(s): Koizumi N. et al.
  • Journal Title: Conservation Genet Resour Volume: 4 Issue: 1 Pages: 55-58
  • DOI: 10.1007/s12686-011-9470-z
  • Peer Reviewed
• [Journal Article] Isolation and characterization of 40 polymorphic microsatellite markers from Parambassis siamensis (2012)
  • Author(s): Koizumi, N., Morioka, S., Quinn, T. W.(他5名)
  • Journal Title: Conservation Genetics Resources Volume: 4 Issue: 4 Pages: 1031-1035
  • DOI: 10.1007/s12686-012-9700-z
  • Peer Reviewed
• [Journal Article] Development and characterization of 29 polymorphic microsatellite loci for Esomus metallicus (2012)
  • Author(s): Koizumi, N., Morioka, S., Quinn, T. W.(他5名)
  • Journal Title: Conservation Genetics Resources Volume: 4 Issue: 4 Pages: 1027-1030
  • DOI: 10.1007/s12686-012-9699-1
  • Peer Reviewed
• [Journal Article] Trends and future subjects of research on fish ecology, conservation and management in agricultural canals and ditches. (2012)
  • Author(s): 小出水規行・西田一也・水谷正一
  • Journal Title: Ecology and Civil Engineering Volume: 15 Issue: 2 Pages: 281-286
  • DOI: 10.3825/ece.15.281
  • NAID: 130004541667
  • ISSN: 1344-3755, 1882-5974
  • Peer Reviewed
• [Journal Article] Development and characterization of 23 polymorphic microsatellite markers for Sympetrum frequens (2012)
  • Author(s): Koizumi, N., Quinn, T. W., Jinguji, H.(他4名)
  • Journal Title: Conservation Genetics Resources Volume: 4 Issue: 1 Pages: 67-70
  • DOI: 10.1007/s12686-011-9476-6
  • Peer Reviewed
• [Journal Article] 農村生態系保全に向けてのドジョウとカラドジョウの簡易な種判別式 (2012)
  • Author(s): 小出水規行・森淳・水谷正一(他3名)
  • Journal Title: 農村工学研究所技報 Volume: 212 Pages: 167-175
  • NAID: 40019326106
  • URL: http://www.naro.affrc.go.jp/publicity_report/publication/files/212_1-10.pdf
  • Peer Reviewed
• [Journal Article] Isolation and characterization of 21 polymorphic microsatellite loci in the Japanese dace (Tribolodon hakonensis) (2011)
  • Author(s): Koizumi, N., Quinn, T. W., Park, M.(他5名)
  • Journal Title: Conservation Genetics Resources Volume: 3 Issue: 3 Pages: 565-567
  • DOI: 10.1007/s12686-011-9405-8
  • Peer Reviewed
• [Journal Article] Origin of the two major distinct mtDNA clades of the Japanese population of the oriental weather loach Misgurnus anguillicaudatus (Teleostei : Cobitidae) (2011)
  • Author(s): Kitagawa, T., Fujii, Y. and Koizumi, N.
  • Journal Title: Folia Zoologica Volume: 60 Pages: 343-349
  • URL: http://www.ivb.cz/folia/60/4/11_114-2010.pdf
  • Peer Reviewed
• [Presentation] Development of a simple method of discrimination between the Dojo and Kara-dojo loaches for the conservation of Japan's rural ecosystem (2013)
  • Author(s): Koizumi, N., Nishida, K., Mori, A.(他2名)
  • Organizer: Proceedings of PAWEES 2013 (12th) International Conference, 59-66
  • Place of Presentation: Cheongju, South Korea
  • Year and Date: 2013-10-30
• [Presentation] Investigation of population genetic diversity of common small fish in the Mekong River Basin, Vientiane, Lao PDR, for conserving native fishes (2013)
  • Author(s): Koizumi, N., Morioka, S., Mori, A.(他4名)
  • Organizer: Abstract book of 26th International Congress for Conservation Biology, 111-112
  • Place of Presentation: Baltimore, Maryland, USA
  • Year and Date: 2013-07-22
• [Presentation] Genetic diversity and population structure of small freshwater fish in Mekong River Basin (2012)
  • Author(s): Koizumi, N., Morioka, S., Mori, A.(他4名)
  • Organizer: Proceedings of PAWEES 2012 International Conference, 013KOI
  • Place of Presentation: Nonthaburi, Thailand
  • Year and Date: 2012-11-28
• [Presentation] Genetic diversity and population structure of small freshwater fish in Mekong River Basin (2012)
  • Author(s): N. Koizumi, S. Morioka, A. Mori, B. Vongvichith, K. Nishida, K. Watabe and T. Takemura
  • Organizer: PAWEES 2012 Int. Con.
  • Place of Presentation: Bangkok, Thailand
• [Presentation] 生息場形成に求められる農業水路の生態機能 (2011)
  • Author(s): 小出水規行
  • Organizer: 応用生態工学会第15回研究発表会
  • Place of Presentation: 金沢学院大学
• [Book] Genetic diversity and population structure of the Hotoke loach, Lefua echigonia, a Japanese endangered loach. Ed by Baptista, G. R., An Integrated View of the Molecular Recognition and Toxinology - From Analytical Procedures to Biomedical Applications (2013)
  • Author(s): Koizumi, N., Mizutani, M., Watabe, K(他3名)
  • Publisher: InTech