Development of novel microsatellite markers for aquaculture important species, milkfish (Chanos chanos Forsskål, 1775) with implications of conservation and management

• Published in: Conservation genetics resources Vol. 16; no. 3; pp. 209 - 212
• Main Authors: Jose, Divya Merin, Radhakrishnan, Divya Prema, Lal, Kuldeep Kumar
• Format: Journal Article
• Language: English
• Published: Dordrecht Springer Netherlands 01.09.2024; Springer Nature B.V
• Subjects: Animal Genetics and Genomics; Aquaculture; Biodiversity; Biomedical and Life Sciences; Chanos chanos; Conservation Biology/Ecology; Ecology; Evolutionary Biology; Genetic analysis; Genetic diversity; Genetic markers; Genetic relationship; Genomes; Life Sciences; Microsatellites; Mutation; Plant Genetics and Genomics; Polymorphism; Technical Note; Milkfish; Population genetics; SSRs
• ISSN: 1877-7260; 1877-7252; 1877-7260
• DOI: 10.1007/s12686-024-01354-6

A total of 20 polymorphic microsatellites were developed and characterized for a potential aquaculture species, Chanos chanos , utilizing the comprehensive whole genome data of C. chanos obtained from the GenBank database (accession number: LR697106). Using the MIcroSAtellite (MISA) tool, potential microsatellite motifs were identified in the assembled contigs and unigenes and with the PRIMER 3 input software (Version 4.1.0), new primers were developed. The number of alleles per locus in C. chanos varied from 9 to 16, with observed heterozygosities ranging from 0.710 to 0.926, while the expected heterozygosities were within the range of 0.720 to 0.902. Among the 20 microsatellite loci, the majority exhibited PIC values > 0.75. Validation of these microsatellite markers proved that these markers can be used as a significant tool for analysing genetic differentiation as well genetic relationships among C. chanos .