International Journal of Pure & Applied Bioscience (IJPAB)
Year : 2017, Volume : 5, Issue : 4
First page : (2081) Last page : (2089)
Article doi: http://dx.doi.org/10.18782/2320-7051.5252
Effect of Different Probe Hybridization Methods on the Yield of Simple Sequence Repeat Loci in Clarias batrachus
Mukesh Kumar1#*, Sujit Kumar2#, Aditya Pratap Acharya1, Deepak Agarwal1, Martina Laishram3, Rekha Das1, Himanshu Priyadarshi1
1Fish Genetics and Biotechnology Division, ICAR- Central Institute of Fisheries Education, Versova, Mumbai
2Aquaculture Division, Kamdhenu University, Gandhinagar, Gujarat, 382010
3Fisheries Resources, Harvest & Post-Harvest Division, ICAR- Central Institute of Fisheries Education, Versova, Mumbai, 400 061
Address of the institution where the work was carried: Fish Genetics and Biotechnology Division, ICAR- Central Institute of Fisheries Education, Versova, Mumbai, 400 061
# equally contributed in research
*Corresponding Author E-mail: mukeshpandeyfish@gmail.com
Received: 19.07.2017 | Revised: 28.07.2017 | Accepted: 30.07.2017
ABSTRACT
Probe hybridization is one of the most critical steps in the identification of simple sequence repeat loci from a repeat enriched genomic DNA library further used for Sangers or next generation sequencing. Here we report the comparative analysis of three different approaches used for probe hybridization in a repeat enriched genomic DNA library of Clarias batrachus. The percentage of SSR containing sequence for Bloor et al., 2002, Glen et al., 2007and modified method was found to be 26%, 29.42% and 42% respectively. The maximum number of di (101) and trinucleotide (18) repeat motif was found with Glen et al., 2007 protocol. Tetranucleotide repeat motif was found to be maximum (7) with the modified protocol. We conclude from our study that the modified protocol described in this paper increases the yield of specifically non-targeted loci.
Key words: Simple sequence repeat motif, Probe hybridization, Comparison, Efficiency, Non targeted.
Full Text : PDF; Journal doi : http://dx.doi.org/10.18782
Cite this article: Kumar, M., Kumar, S., Acharya, A.P., Agarwal, D., Laishram, M., Das, R., Priyadarshi, H., Effect of Different Probe Hybridization Methods on the Yield of Simple Sequence Repeat Loci in Clarias batrachus, Int. J. Pure App. Biosci.5(4): 2081-2089 (2017). doi: http://dx.doi.org/10.18782/2320-7051.5252
