Skip to main content
SpringerLink
Log in

Development of 15 polymorphic microsatellite markers for the shortfin mako, Isurus oxyrinchus, and cross-species amplification in lamniforme sharks

  • Technical Note
  • Published:
Conservation Genetics Resources Aims and scope Submit manuscript

Abstract

The shortfin mako (Isurus oxyrinchus, Lamniformes) is one of common sharks caught incidentally by tuna longline and drift net fisheries in the tropical and temperate waters. However, their genetic diversity and population structure for effective management remain to be elucidated with sufficient number of genetic markers. A total of fifteen novel microsatellite markers for the shortfin mako were developed using a next generation sequencing approach. All the microsatellite loci isolated were polymorphic with 2–23 alleles, with the observed and expected heterozygosities of 0.06–1.00 and 0.06–0.93, respectively. Cross-species amplification in six other lamniforme sharks was successful at thirteen out of fifteen loci isolated. The developed microsatellite markers will be useful for the population genetic analysis of lamniforme sharks including the shortfin mako.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Log in via an institution

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Institutional subscriptions

References

  • Agostini C, Agudelo PA, Ba K et al (2011) Permanent genetic resources added to molecular ecology resources database 1(October), pp 2010–30, November 2010. Mol Ecol Resour 11:418–421

    Article  PubMed  Google Scholar 

  • Ballard LW, Adams PS, Bao Y, Bartley D, Bintzler D, Kasch L, Petukhova L, Rosato C (2002) Strategies for genotyping: effectiveness of tailing primers to increase accuracy in short tandem repeat determinations. J Biomol Tech 13:20–29

    PubMed  Google Scholar 

  • Benson G (1999) Tandem repeats finder: a program to analyze DNA sequences. Nucleic Acid Res 27:573–580

    Article  PubMed  CAS  Google Scholar 

  • Boutin-Ganache I, Raposo M, Raymond M, Deschepper CF (2001) M13-tailed primers improve the readability and usability of microsatellite analyses performed with two different allele sizing methods. Biotechniques 31:25–28

    Google Scholar 

  • Compagno LJV (2001) FAO Species Catalog, vol 4: Sharks of the World; Part 2—Bullhead, mackerel and carpet sharks. Food and Agricultural Organization of the United Nations, Rome

    Google Scholar 

  • Excoffier L, Lischer HEL (2010) Arlequin suite ver 3.5: a new series of programs to perform population genetics analyses under Linux and Windows. Mol Ecol Resour 10:564–567

    Article  PubMed  Google Scholar 

  • Heist EJ, Musick JA, Graves JE (1996) Genetic population structure of the shortfin mako (Isurus oxyrinchus) inferred from restriction fragment length polymorphism analysis of mitochondrial DNA. Can J Fish Aquat Sci 53:583–588

    Article  CAS  Google Scholar 

  • Holm S (1979) A simple sequentially rejective multiple test procedure. Scand J Statist 6:65–70

    Google Scholar 

  • Nakamura Y, Shigenobu Y, Sugaya T, Kurokawa T, Saitoh K (2013) Automated screening and primer design of fish microsatellite DNA loci on pyrosequencing data. Ichthyol Res. doi:10.1007/s10228-012-0317-8

    Google Scholar 

  • Raymond M, Rousset F (1995) GENEPOP (version 1.2) population genetics software for exact tests and ecumenicism. J Hered 86:248–249

    Google Scholar 

  • Rousset F (2008) GENEPOP ‘ 007: a complete re-implementation of the GENEPOP software for Windows and Linux. Mol Ecol Resour 8:103–106

    Article  PubMed  Google Scholar 

  • Rozen S, Skaletsky H (2000) Primer3 on the WWW for general users and for biologist programmers. In: Krawetz S, Misener S (eds) Bioinformatics methods and protocols, methods in molecular biology, vol 132. Humana Press, Totowa, pp 365–386

    Chapter  Google Scholar 

  • Schrey AW, Heist EJ (2002) Microsatellite markers for the shortfin mako and cross-species amplification in lamniformes. Conserv Genet 3:459–461

    Article  CAS  Google Scholar 

  • Schrey AW, Heist EJ (2003) Microsatellite analysis of population structure in the shortfin mako (Isurus oxyrinchus). Can J Fish Aquat Sci 60:670–675

    Article  CAS  Google Scholar 

  • Van Oosterhout C, Hutchinson WF, Wills DPM, Shipley P (2004) MICRO-CHECKER: software for identifying and correcting genotyping errors in microsatellite data. Mol Ecol Notes 4:535–538

    Article  Google Scholar 

Download references

Acknowledgments

We are grateful to all the fisherman, observers and researchers who contributed to the collection of the samples used in the present work. We thank Dr. Syuiti Abe, Iwate University, Iwate for his constructive comments.

Author information

Author notes

  1. Makoto Ohkubo

    Present address: Department of Biology, Faculty of Education and Integrated Arts and Sciences, Waseda University, 2-2 Wakamatsu-cho, Shinjuku-ku, Tokyo, 162-8480, Japan

  2. Takuma Sugaya

    Present address: Momoshima Branch, National Research Institute of Fisheries and Environment of Inland Sea, 1760 Momoshima, Onomichi, Hiroshima, 722-0061, Japan

Authors and Affiliations

  1. National Research Institute of Far Seas Fisheries, 5-7-1 Orido, Shimizu-ku, Shizuoka, 424-8633, Japan

    Mioko Taguchi & Kotaro Yokawa

  2. JAPAN NUS CO., LTD., Nishi-Shinjuku Kimuraya Bldg., 5F, 7-5-25 Nishi-Shinjuku, Shinjuku-ku, Tokyo, 160-0023, Japan

    Toru Kitamura

  3. National Research Institute of Fisheries Science, 2-12-4 Fukuura, Kanazawa, Yokohama, Kanagawa, 236-8648, Japan

    Yuya Shigenobu, Makoto Ohkubo, Takashi Yanagimoto, Takuma Sugaya, Yoji Nakamura & Kenji Saitoh

Authors
  1. Mioko Taguchi
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. Toru Kitamura
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. Yuya Shigenobu
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. Makoto Ohkubo
    View author publications

    You can also search for this author in PubMed Google Scholar

  5. Takashi Yanagimoto
    View author publications

    You can also search for this author in PubMed Google Scholar

  6. Takuma Sugaya
    View author publications

    You can also search for this author in PubMed Google Scholar

  7. Yoji Nakamura
    View author publications

    You can also search for this author in PubMed Google Scholar

  8. Kenji Saitoh
    View author publications

    You can also search for this author in PubMed Google Scholar

  9. Kotaro Yokawa
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding author

Correspondence to Mioko Taguchi.

Rights and permissions

Reprints and permissions

About this article

Cite this article

Taguchi, M., Kitamura, T., Shigenobu, Y. et al. Development of 15 polymorphic microsatellite markers for the shortfin mako, Isurus oxyrinchus, and cross-species amplification in lamniforme sharks. Conservation Genet Resour 5, 675–678 (2013). https://doi.org/10.1007/s12686-013-9880-1

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s12686-013-9880-1

Keywords

Search

Navigation