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Isolation and characterization of 23 novel polymorphic microsatellite markers from the endangered Puerto Rican boa (Chilabothrus inornatus) using paired-end Illumina shotgun sequencing

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Abstract

We developed 23 microsatellite loci for the endangered Puerto Rican boa, Chilabothrus inornatus, from 100 bp reads obtained from a paired-end Illumina shotgun library. Importantly, these loci can be amplified using the same touchdown PCR program. All loci were highly polymorphic, with between 5 and 15 alleles found among 24 individuals genotyped from three populations. We anticipate that these loci will be extremely useful in conservation genetic studies of this species.

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References

  1. Castoe TA, Poole AW, Jason de Koning AP, Jones KL, Tomback DF, Oyler-McCance SJ, Fike JA, Lance SL, Streicher JW, Smith EN, Pollock DD (2012) Rapid microsatellite identification from Illumina paired-end genomic sequencing in two birds and a snake. PLoS ONE 7:e30953

    CAS  PubMed Central  PubMed  Article  Google Scholar 

  2. 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 

  3. Puente-Rolón AR, Reynolds RG, Revell LJ (2013) Preliminary genetic analysis supports cave populations as targets for conservation in the endemic, endangered Puerto Rican boa (Boidae: Epicrates inornatus). PLoS ONE 8(5):e63899

    PubMed Central  PubMed  Article  Google Scholar 

  4. Raymond M, Rousset F (1995) GenePop v1.2: population genetics software for exact test and ecumenicism. J Hered 86:248–249

    Google Scholar 

  5. 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 

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Acknowledgments

We thank K. Winchell and speleological volunteers for assistance in the field. We are grateful to R. Beasley, S. Lance, and the Molecular Ecology Laboratory at the Savannah River Ecological Lab for assistance with sequencing and primer design. We are also grateful to the Puerto Rico Departamento de Recursos Naturales y Ambientales (DRNA) for permits and assistance. All samples were collected under DRNA permits 2012-EPE-001 (to RGR) and 00-EPE-16 (to ARPR), U.S. Fish and Wildlife Native Endangered Species Recovery Permit # TE63270A-0 (to RGR), and U.S. Department of Agriculture Special Use Permit # CNF-2118 (to RGR). We are grateful for funding from the United States Fish and Wildlife Service Southeast Region Endangered Species Recovery Implementation. This work was approved by the University of Massachusetts Boston Institutional Animal Care and Use Committee (IACUC) Protocol no. 2011006.

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Correspondence to R. Graham Reynolds.

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Reynolds, R.G., Puente-Rolón, A.R., Kolodzaike, K. et al. Isolation and characterization of 23 novel polymorphic microsatellite markers from the endangered Puerto Rican boa (Chilabothrus inornatus) using paired-end Illumina shotgun sequencing. Conservation Genet Resour 6, 107–109 (2014). https://doi.org/10.1007/s12686-013-0016-4

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Keywords

  • Boidae
  • Conservation
  • Endangered species
  • Epicrates
  • Microsatellites
  • Next generation DNA sequencing