title: Relative profile analysis of molecular markers for identification and genetic discrimination of loaches (Pisces, Nemacheilidae).
abstract: Genus Nemacheilus, Nemachilichthys and Schistura belong to the family Nemacheilidae of the order Cypriniformes. The present investigation was undertaken to observe genetic diversity, phylogenetic relationship and to develop a molecular-based tool for taxonomic identification. For this purpose, four different types of molecular markers were utilized in which 29 random amplified polymorphic DNA (RAPD), 25 inter-simple sequence repeat (ISSR) markers, and 10 amplified fragment length polymorphism (AFLP) marker sets were screened and mitochondrial COI gene was sequenced. This study added COI barcodes for the identification of Nemacheilus anguilla, Nemachilichthys rueppelli and Schistura denisoni. RAPD showed higher polymorphism (100%) than the ISSR (93.75-100%) and AFLP (93.86-98.96%). The polymorphic information content (PIC), heterozygosity, multiplex ratio, and gene diversity was observed highest for AFLP primers, whereas the major allele frequency was observed higher for RAPD (0.5556) and lowest for AFLP (0.1667). The COI region of all individuals was successfully amplified and sequenced, which gave a 100% species resolution.
authors.affiliation: Department of Zoology, Shivaji University, Kolhapur 416004, India.
authors.forename: Tejas Suresh
authors.initials: TS
authors.lastname: Patil
authors.affiliation: Department of Biochemistry, Shivaji University, Kolhapur 416004, India.
authors.forename: Asif Shabodin
authors.initials: AS
authors.lastname: Tamboli
authors.affiliation: Department of Biotechnology, Shivaji University, Kolhapur 416004, India.
authors.forename: Swapnil Mahadeo
authors.initials: SM
authors.lastname: Patil
authors.affiliation: Department of Zoology, Shivaji University, Kolhapur 416004, India.
authors.forename: Amrut Ravindra
authors.initials: AR
authors.lastname: Bhosale
authors.affiliation: Department of Biochemistry, Shivaji University, Kolhapur 416004, India.
authors.forename: Sanjay Prabhu
authors.initials: SP
authors.lastname: Govindwar
authors.affiliation: Department of Zoology, Shivaji University, Kolhapur 416004, India. Electronic address: drdvmuley@gmail.com.
authors.forename: Dipak Vishwanathrao
authors.initials: DV
authors.lastname: Muley
mesh_terms: D000483:Alleles; D000818:Animals; D002965:Classification; D003531:Cypriniformes / Q000235:genetics*; D004247:DNA / Q000235:genetics; D058893:DNA Barcoding, Taxonomic; D005787:Gene Frequency; D005819:Genetic Markers / Q000235:genetics*; D014644:Genetic Variation; D006579:Heterozygote; D008928:Mitochondria / Q000235:genetics; D010802:Phylogeny; D011110:Polymorphism, Genetic / Q000235:genetics; D012150:Polymorphism, Restriction Fragment Length; D013045:Species Specificity
chemical_list: D005819:Genetic Markers; D004247:DNA
keywords: DNA barcoding; Loaches; Molecular markers; Morphological ambiguities