Development and characterization of 37 SNP markers for the largemouth bass (Micropterus salmoides) by using PCR–RFLP method

Jinxing Du,Meng Zhang,Xuejun Li,Yubang Shen,Jiao Cui,Zhou Jiang,Shengjie Li,Chuanju Dong,Jiaqi Shao

doi:10.1007/s12686-021-01229-0

Abstract

Largemouth bass (Micropterus salmoides) is an economically important species in China. Contrary to its rapidly increasing yield during the last decades, the domestic genetic diversity of largemouth bass has gradually declined. In this study, 37 single nucleotide polymorphism (SNP) markers were developed based on genotyping-by-sequencing data and characterized by genotyping 32 individuals using the PCR–restriction fragment length polymorphism method. The effective number of alleles (Ne), observed heterozygosity (Ho), expected heterozygosity (He), and polymorphic information content (PIC) of these SNPs ranged from 1.168 to 1.998, 0.156 to 0.844, 0.146 to 0.507, and 0.134 to 0.375, respectively. Totally, five loci deviated significantly from Hardy–Weinberg equilibrium (p < 0.05), while there existed no linkage disequilibrium at all loci. These novel polymorphic markers will lay the foundation for future rationally excavation and utilization of germplasm resources in M. salmoides.

Highlights

Largemouth bass (Micropterus salmoides) is a wildly distributed and indigenous species in North American freshwaters, and can be considered a typical representative carnivorous fish (Chen et al 2015; Gaeta et al 2015)
For further rationally excavation and utilization of largemouth bass germplasm resources, 37 single nucleotide polymorphism (SNP) markers were developed based on genotyping-by-sequencing (GBS) data and characterized by genotyping 32 individuals using the PCR-RFLP method
It is worth mentioning that molecular markers about largemouth bass were mainly about simple sequence repeat (SSR) markers (Kubota et al 2014), while few single nucleotide polymorphism (SNP) markers have been developed and reported, which may be caused by the high SNP-genotyping costs

Summary

Introduction

Largemouth bass (Micropterus salmoides) is a wildly distributed and indigenous species in North American freshwaters, and can be considered a typical representative carnivorous fish (Chen et al 2015; Gaeta et al 2015). Largemouth bass (Micropterus salmoides) is an economically important species in China.

Results

Conclusion