Abstract
Sixteen polymorphic microsatellite loci were developed using a 454 sequencing approach, and three loci, developed for Sminthopsis douglasi, were optimized for the endangered sandhill dunnart, Sminthopsis psammophila. Nineteen loci (16 S. psammophila and three S. douglasi) were tested on 38 individual S. psammophila from two populations in South Australia. Three loci deviated from Hardy–Weinberg equilibrium, possibly due to null alleles. No evidence of linkage disequilibrium was detected. We recommend a final panel of 17 loci for future genetic analyses of S. psammophila, which will aid in conservation management of this poorly understood and nationally endangered marsupial.
References
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(3):564–567. doi:10.1111/j.1755-0998.2010.02847.x
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
Hayden MJ, Nguyen TM, Waterman A, McMichael GL, Chalmers KJ (2008) Application of multiplex-ready PCR for fluorescence based SSR genotyping in barley and wheat. Mol Breed 21(3):271–281. doi:10.1007/s11032-007-9127-5
Spencer PBS, Fletecher TP, Woolley PA (2003) Microsatellite markers from the Julia Creek dunnart, Sminthopsis douglasi (Marsupialia: Dasyuridae). Mol Ecol Notes 3(4):570–571. doi:10.1046/j.1471-8286.2003.00514.x
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(3):535–538. doi:10.1111/j.1471-8286.2004.00684.x/abstract
Acknowledgments
Funding was obtained from OneSteel Whyalla, Nature Foundation SA, Holswoth Wildlife Research Endowment, Australian and Pacific Science Foundation and Field Naturalists Society of South Australia. We thank the Department of Environment, Water and Natural Resources for access to Ironstone Hill Conservation Park, Matthew Ward (DEWNR) for collecting tissue samples from Yellabinna Regional Reserve and Kathy Saint for laboratory assistance.
Author information
Authors and Affiliations
Corresponding author
Rights and permissions
About this article
Cite this article
McLean, A.L., Cooper, S.J.B., Lancaster, M.L. et al. Development of 16 microsatellite loci for the endangered sandhill dunnart (Sminthopsis psammophila). Conservation Genet Resour 6, 323–326 (2014). https://doi.org/10.1007/s12686-013-0084-5
Received:
Accepted:
Published:
Issue Date:
DOI: https://doi.org/10.1007/s12686-013-0084-5