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Identification of seventeen microsatellite markers for conservation genetic studies of the endemic anemonefish, Amphiprion mccullochi

Abstract

Endemic species at remote islands have a high risk of extinction because they often exhibit ecological, biological and genetic traits that make them particularly vulnerable to disturbances. McCulloch’s anemonefish (Amphiprion mccullochi) is endemic to a few oceanic reefs off Australia’s east coast and is an habitat specialist. Using 454 shotgun sequencing, we developed and evaluated primers for seventeen independent microsatellite loci to reveal gene flow, population genetic structure and genetic diversity across three isolated reefs. Observed and expected heterozygosities ranged from 0.556 to 1 and 0.543 to 0.907, respectively, in 30 Lord Howe Island individuals. When cross tested with the close relative, Amphiprion akindynos, amplification was successful with high levels of polymorphism. These loci will therefore be useful in studies of A. mccullochi, A. akindynos and possibly other closely related anemonefish.

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References

  1. Benjamini Y, Hochberg Y (1995) Controlling the false discovery rate: a practical and powerful approach to multiple testing. J R Stat Soc Ser B-Methodol 57:289–300

    Google Scholar 

  2. Coleman N (1980) Australia sea fishes south of 30°S. Lane Cove. Doubleday Australia Pty Ltd, NSW, p 309

    Google Scholar 

  3. Fautin DG, Allen GR (1992) Anemone fishes and their host sea anemones: a guide for aquarists and divers. Western Australian Museum, Perth

    Google Scholar 

  4. Frankham R (1998) Inbreeding and extinction: Island populations. Conserv Biol 12(3):665–675

    Article  Google Scholar 

  5. Gardner MG, Fitch AJ, Bertozzi T, Lowe AJ (2011) Rise of the machines—recommendations for ecologists when using next generation sequencing for microsatellite development. Mol Ecol Resour, online in advance of print. doi:10.1111/j.1755-0998.2011.03037.x

  6. Gillespie RG, Claridge EM, Roderick GK (2008) Biodiversity dynamics in isolates island communities: interaction between natural and human-mediated processes. Mol Ecol 17(1):45–57

    PubMed  Article  Google Scholar 

  7. Kalinowski ST, Taper ML, Marshall TC (2007) Revising how the computer program CERVUS accommodates genotyping error increases success in paternity assignment. Mol Ecol 16:1099–1106

    PubMed  Article  Google Scholar 

  8. McKinney ML (1997) Extinction vulnerability and selectivity: combining ecological and paleontological views. Annu Rev Ecol Syst 28:495–516

    Article  Google Scholar 

  9. Meglecz E, Costedoat C, Dubut V, Gilles A, Malausa T, Pech N, Martin JF (2009) QDD: a user-friendly program to select microsatellite markers and design primers from large sequencing projects. Bioinformatics advance access. Oxford University Press, Oxford, p 2

    Google Scholar 

  10. Peakall R, Smouse PE (2006) GENALEX 6: genetic analysis in excel. Population genetic software for teaching and research. Mol Ecol Notes 6:288–295

    Article  Google Scholar 

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

    PubMed  Article  Google Scholar 

  12. Shimizu M, Kosaka N, Shimada T, Nagahata T, Iwasaki H, Nagai H, Shiba T, Emi M (2002) Universal fluorescent labelling (UFL) method for automated microsatellite analysis. DNA Res 9:173–178

    PubMed  Article  CAS  Google Scholar 

  13. 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 4:535–553

    Article  Google Scholar 

Download references

Acknowledgments

We are grateful for valuable support and assistance provided by Sallyann Gudge and Ian Kerr, the Lord Howe Island Board, Envirofund Australia (Natural Heritage Trust) and the Lord Howe Island Marine Park. We also thank L. Bay for the Amphiprion akindynos samples.

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Correspondence to Martin H. van der Meer.

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van der Meer, M.H., Gardner, M.G., Hobbs, JP.A. et al. Identification of seventeen microsatellite markers for conservation genetic studies of the endemic anemonefish, Amphiprion mccullochi . Conservation Genet Resour 4, 247–250 (2012). https://doi.org/10.1007/s12686-011-9517-1

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Keywords

  • Coral reef fish
  • Island endemics
  • Genetic diversity
  • Cross-species amplification