DNA barcoding Indian freshwater fishes

Lakra, W S and Singh, M and Goswami, Mukunda and Gopalakrishnan, A and Lal, Kuldeep Kumar and Mohindra, Vindhya and Sarkar, U K and Punia, P and Singh, K V and Bhatt, J P and Ayyappan, S (2016) DNA barcoding Indian freshwater fishes. Mitochondrial DNA Part A DNA Mapping, Sequencing, and Analysis, 27 (6). pp. 4510-4517.

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Abstract

DNA barcoding is a promising technique for species identification using a short mitochondrial DNA sequence of cytochrome c oxidase I (COI) gene. In the present study, DNA barcodes were generated from 72 species of freshwater fish covering the Orders Cypriniformes, Siluriformes, Perciformes, Synbranchiformes, and Osteoglossiformes representing 50 genera and 19 families. All the samples were collected from diverse sites except the species endemic to a particular location. Species were represented by multiple specimens in the great majority of the barcoded species. A total of 284 COI sequences were generated. After amplification and sequencing of 700 base pair fragment of COI, primers were trimmed which invariably generated a 655 base pair barcode sequence. The average Kimura two-parameter (K2P) distances within-species, genera, families, and orders were 0.40%, 9.60%, 13.10%, and 17.16%, respectively. DNA barcode discriminated congeneric species without any confusion. The study strongly validated the efficiency of COI as an ideal marker for DNA barcoding of Indian freshwater fishes.

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