title: Non-homologous COI barcode regions: a serious concern in decapod molecular taxonomy.
abstract: Biodiversity is well defined with the assistance of taxonomy, the science which classifies organisms with "species" as the basic unit. Presently, in taxonomy, morphological type specimen is complimented with its molecular data from "type" gene sequences and species status is granted. For this, DNA barcoding using standardized DNA gene(s) is performed in which Cytochrome c oxidase I gene of mitochondrial DNA is referred as the primary barcode region for animal kingdom. Being a popular mitochondrial marker, this gene is reported to possess two barcode regions with limited overlap, "Folmer" and "Palumbi" regions particularly in decapod crustaceans. Here we demonstrate the issues originated as a result of incorporation of both these barcode regions together in addressing various aspects of DNA barcoding like specimen identification, population analysis, and phylogeny in decapod crustaceans using COI sequences ("Folmer" and "Palumbi") of Macrobrachium rosenbergii as reference sequences.
authors.affiliation: a School of Industrial Fisheries, Cochin University of Science and Technology , Kochi , Kerala , India.
authors.forename: Deepak
authors.initials: D
authors.lastname: Jose
authors.affiliation: a School of Industrial Fisheries, Cochin University of Science and Technology , Kochi , Kerala , India.
authors.forename: Mahadev
authors.initials: M
authors.lastname: Harikrishnan
mesh_terms: D000818:Animals; D044822:Biodiversity; D058893:DNA Barcoding, Taxonomic / Q000379:methods*; D004272:DNA, Mitochondrial / Q000235:genetics; D033364:Decapoda / Q000145:classification* / Q000235:genetics; D003576:Electron Transport Complex IV / Q000235:genetics*; D010802:Phylogeny
chemical_list: D004272:DNA, Mitochondrial; D003576:Electron Transport Complex IV
keywords: Cytochrome c oxidase I; DNA barcoding; Folmer and Palumbi regions; Macrobrachium rosenbergii