APPLICATION OF NEXT GENERATION SEQUENCING (NGS) FOR SCREENING SINGLE NUCLEOTIDE POLYMORPHISMS (SNP) RELATED TO GROWTH TRAITS OF OTTER CLAM (Lutraria rhynchaen, Jonas 1844)

Abstract

Otter clam farming in Van Don, Quang Ninh has been encountering difficulties because of poor quality of breeds and more frequent disease outbreaks. On that basis, it is necessary to conduct genetic studies to improve the source of breeds, especially the combination of quantitative inheritance and molecular genetics to select desirable traits by molecular indicator. In this study, we employed next-generation sequencing of gene technology NovaSeq6000 to sequence and screen single nucleotide polymorphism (SNPs) that relates to growth traits in otter clam. The results was screened shows that total 1,470,534 SNPs to 2 groups, in which 703.228 SNPs only appeared in fast-growing group, 394.723 SNPs only appeared in slow-growing group, and 372.583 SNPs appeared in both groups. Through screening and genetic linkage analysis, 20 potential SNPs for fast-growing group and 12 potential SNPs for slow-growing group were achieved. The study suggests that SNP Screen should be employed as a molecular indicator method to serve geoduck breed selection in Vietnam.