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DNA Barcoding Amphibians and Reptiles

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DNA Barcodes

Part of the book series: Methods in Molecular Biology ((MIMB,volume 858))

Abstract

Only a few major research programs are currently targeting COI barcoding of amphibians and reptiles (including chelonians and crocodiles), two major groups of tetrapods. Amphibian and reptile species are typically old, strongly divergent, and contain deep conspecific lineages which might lead to problems in species assignment with incomplete reference databases. As far as known, there is no single pair of COI primers that will guarantee a sufficient rate of success across all amphibian and reptile taxa, or within major subclades of amphibians and reptiles, which means that the PCR amplification strategy needs to be adjusted depending on the specific research question. In general, many more amphibian and reptile taxa have been sequenced for 16S rDNA, which for some purposes may be a suitable complementary marker, at least until a more comprehensive COI reference database becomes available. DNA barcoding has successfully been used to identify amphibian larval stages (tadpoles) in species-rich tropical assemblages. Tissue sampling, DNA extraction, and amplification of COI is straightforward in amphibians and reptiles. Single primer pairs are likely to have a failure rate between 5 and 50% if taxa of a wide taxonomic range are targeted; in such cases the use of primer cocktails or subsequent hierarchical usage of different primer pairs is necessary. If the target group is taxonomically limited, many studies have followed a strategy of designing specific primers which then allow an easy and reliable amplification of all samples.

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Acknowledgment

We thank the Belgian Science Policy Office for supporting the Joint Experimental Molecular Unit.

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Authors and Affiliations

  1. Division of Evolutionary Biology Zoological Institute, Technical University of Braunschweig, Braunschweig, Germany

    Miguel Vences

  2. Joint Experimental Molecular Unit, Royal Belgian Institute of Natural Sciences, Brussels, Belgium

    Zoltán T. Nagy & Gontran Sonet

  3. Vertebrate department, Royal Belgian Institute of Natural Sciences, Brussels, Belgium

    Erik Verheyen

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  1. Miguel Vences
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  2. Zoltán T. Nagy
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  3. Gontran Sonet
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  4. Erik Verheyen
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Correspondence to Miguel Vences .

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Editors and Affiliations

  1. National Museum of Natural History, Dept. Botany, Smithsonian Institution, 10th St. & Constitution Ave. NW.,, Washington, 20560-0166, District of Columbia, USA

    W. John Kress

  2. National Museum of Natural History, Dept. Botany, Smithsonian Institution, 10th St. & Constitution Ave. NW.,, Washington, 20560-0166, District of Columbia, USA

    David L. Erickson

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Vences, M., Nagy, Z.T., Sonet, G., Verheyen, E. (2012). DNA Barcoding Amphibians and Reptiles. In: Kress, W., Erickson, D. (eds) DNA Barcodes. Methods in Molecular Biology, vol 858. Humana Press, Totowa, NJ. https://doi.org/10.1007/978-1-61779-591-6_5

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  • DOI: https://doi.org/10.1007/978-1-61779-591-6_5

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