Isolation and characterization of polymorphic microsatellite loci in Indian major carp, Cada catla using next-generation sequencing platform

作者：Sahu B P; Sahoo L; Joshi C G; Mohanty P; Sundaray J K; Jayasankar P; Das P^*

来源：Biochemical Systematics and Ecology, 2014, 57: 357-362.

DOI：10.1016/j.bse.2014.09.010

• Catla catla
• Microsatellite
• Next generation sequencing
• Ion Torrent

Catla catla, the second most important Indian major carp, is gaining its popularity among Indian fish farmers due to its high growth rate and consumer preferences. Simple sequence repeats (SSRs) are rapidly evolving, versatile, co-dominant and highly informative molecular markers used in genetic research. However, the time and cost involved in developing such resources has limited their extensive use. Advent of massive parallel sequencing technology has considerably eased these limitations. In the present investigation, we used Ion Torrent sequencing platform to identify potentially amplifiable microsatellite loci for catla. A modest sequencing volume generated approximately 5.7 MB of sequence data. Out of 29,794 sequences generated, 21,477 contained simple sequence repeats. Only 81 sequences had enough flanking sequences for primer designing. Out of 81 loci, 51 were successfully PCR amplified in a panel of five unrelated individuals. Out of 15 loci randomly checked for polymorphism, 13 loci were polymorphic with allele number ranged from 3 to 6 and two loci were found to be monomorphic. The observed and expected heterozygosities ranged from 0.565 to 0.870 and 0.483-0.804, respectively. These markers will be useful for studying genetics of wild populations, breeding programs of C catla and closely related species.

• 出版日期2014-12