DNA barcode reference data for the Korean herpetofauna and their applications

Recently, amphibians and reptiles have drawn attention because of declines in species and populations caused mainly by habitat loss, overexploitation and climate change. This study constructed a DNA barcode database for the Korean herpetofauna, including all the recorded amphibians and 68% of the re...

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Bibliographic Details
Published in:Molecular ecology resources 2013-11, Vol.13 (6), p.1019-1032
Main Authors: Jeong, Tae Jin, Jun, Jumin, Han, Sanghoon, Kim, Hyun Tae, Oh, Kyunghee, Kwak, Myounghai
Format: Article
Language:English
Subjects:
Amphibians
Amphibians - classification
Amphibians - genetics
Animals
cytochrome b
cytochrome c oxidase subunit I
Cytochromes b - chemistry
Cytochromes b - genetics
Databases, Nucleic Acid
Deoxyribonucleic acid
DNA
DNA Barcoding, Taxonomic
DNA, Mitochondrial - chemistry
DNA, Mitochondrial - classification
Elaphe
Electron Transport Complex IV - chemistry
Electron Transport Complex IV - genetics
Endangered Species
Genetic Markers
Genetic Variation
Lacertilia
Phylogeny
Reptiles
Reptiles & amphibians
Reptiles - classification
Reptiles - genetics
Republic of Korea
Species Specificity
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Summary:Recently, amphibians and reptiles have drawn attention because of declines in species and populations caused mainly by habitat loss, overexploitation and climate change. This study constructed a DNA barcode database for the Korean herpetofauna, including all the recorded amphibians and 68% of the recorded reptiles, to provide a useful, standardized tool for species identification in monitoring and management. A total of 103 individuals from 18 amphibian and 17 reptile species were used to generate barcode sequences using partial sequences of the mitochondrial cytochrome c oxidase subunit I (COI) gene and to compare it with other suggested barcode loci. Comparing 16S rRNA, cytochrome b (Cytb) and COI for amphibians and 12S rRNA, Cytb and COI for reptiles, our results revealed that COI is better than the other markers in terms of a high level of sequence variation without length variation and moderate amplification success. Although the COI marker had no clear barcoding gap because of the high level of intraspecific variation, all of the analysed individuals from the same species clustered together in a neighbour‐joining tree. High intraspecific variation suggests the possibility of cryptic species. Finally, using this database, confiscated snakes were identified as Elaphe schrenckii, designated as endangered in Korea and a food contaminant was identified as the lizard Takydromus amurensis.
ISSN:1755-098X
1755-0998
DOI:10.1111/1755-0998.12055