Skip to main content

Advertisement

SpringerLink
Log in

Development, characterisation and cross-species amplification of 16 novel microsatellite markers for the endangered Black-throated Finch (Poephila cincta) in Australia

  • Microsatellite Letters
  • Published:
Conservation Genetics Resources Aims and scope Submit manuscript

Abstract

The Black-throated Finch (Southern) (Poephila cincta cincta) is threatened by the substantial landscape changes in northern Australia. We developed 16 polymorphic microsatellite markers using 454-shotgun whole-genome sequencing technology. We identified an average of 4.7 alleles per locus based on 63 wild caught individuals from Townsville, Queensland. Thirteen and 9 markers were also successfully cross-amplified in two confamilial species, the Double-barred Finch (Taeniopygia bichenovii) and the chestnut-breasted Mannikin (Lonchura castaneothorax) with 11 and 5 were polymorphic, respectively. These markers will help understand the population genetic structure of the endangered Black-throated Finch and determine genetic consequences of landscape changes for the species.

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

  • Benjamini Y, Hochberg Y (1995) Controlling the false discovery rate—a practical and powerful approach to multiple testing. J Roy Stat Soc B Met 57(1):289–300

    Google Scholar 

  • Franklin DC, Whitehead PJ, Pardon G, Matthews J, McMahon P, McIntyre D (2005) Geographic patterns and correlates of the decline of granivorous birds in northern Australia. Wildlife Research 32:399–408. doi:10.1071/WR05052

    Article  Google Scholar 

  • 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 11(6):1093–1101. doi:10.1111/j.1755-0998.2011.03037.x

    Article  PubMed  Google Scholar 

  • Holleley CE, Geerts PG (2009) Multiplex manager 1.0: a cross-platform computer program that plans and optimizes multiplex PCR. Biotechniques 46(7):511–517. doi:10.2144/000113156

    Article  CAS  PubMed  Google Scholar 

  • Meglecz E, Costedoat C, Dubut V, Gilles A, Malausa T, Pech N, Martin JF (2010) QDD: a user-friendly program to select microsatellite markers and design primers from large sequencing projects. Bioinformatics 26(3):403–404. doi:10.1093/bioinformatics/btp670

    Article  CAS  PubMed  Google Scholar 

Download references

Acknowledgments

We especially thank Dr Tony Grice and Dr James Moloney for their valuable help and comments throughout this work. Juliana Rechetelo, Dr April Reside, Troy Countryman, Matthew McIntosh and other volunteers assisted with the fieldwork. We are also grateful to Blanche D’Anastasi, Erica Todd, Georgia McDougall and Alison Fitch for their general laboratory assistance and advice. The development of these primers was conducted within the Molecular Ecology & Evolutionary Laboratory (James Cook University) and funded by the Black-throated Finch Trust and School of Earth & Environmental Sciences at James Cook University.

Author information

Author notes

  1. Lei Tang

    Present address: Australian Tropical Science and Innovation Precinct, James Cook University, Townsville, QLD, 4811, Australia

Authors and Affiliations

  1. School of Earth and Environmental Sciences, James Cook University, Townsville, QLD, 4811, Australia

    Lei Tang

  2. CSIRO Ecosystem Sciences, Private Bag PO Aitkenvale, Townsville, QLD, 4811, Australia

    Lei Tang

  3. School of Marine and Tropical Biology, James Cook University, Townsville, QLD, 4811, Australia

    Lei Tang & Carolyn Smith-Keune

  4. School of Biological Sciences, Flinders University, Adelaide, SA, 5001, Australia

    Michael G. Gardner

  5. Australian Centre for Evolutionary Biology and Biodiversity, University of Adelaide, Adelaide, SA, 5000, Australia

    Michael G. Gardner

  6. Evolutionary Biology Unit, South Australian Museum, Adelaide, SA, 5000, Australia

    Michael G. Gardner

  7. CSIRO Marine and Atmospheric Research, P.O. Box 1538, Hobart, TAS, 7000, Australia

    Britta Denise Hardesty

Authors
  1. Lei Tang
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. Carolyn Smith-Keune
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. Michael G. Gardner
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. Britta Denise Hardesty
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding author

Correspondence to Lei Tang.

Rights and permissions

Reprints and permissions

About this article

Cite this article

Tang, L., Smith-Keune, C., Gardner, M.G. et al. Development, characterisation and cross-species amplification of 16 novel microsatellite markers for the endangered Black-throated Finch (Poephila cincta) in Australia. Conservation Genet Resour 6, 143–146 (2014). https://doi.org/10.1007/s12686-013-0028-0

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s12686-013-0028-0

Keywords

Search

Navigation