Correlation between the SNP of NAGase gene and susceptibility to high pH stress in Fenneropenaeus chinensis

Abstract:

To explore the effect of the beta-N-acetylglucosaminidase (NAGase) gene on the high pH tolerance of Fenneropenaeus chinensis, the single nucleotide polymorphism (SNP) of FcNAGase and its correlation with the high pH tolerance of F. chinensis were determined by direct sequencing and real-time fluorescent quantitative PCR. The results showed that 29 potential SNP loci were detected on the FcNAGase gene by direct sequencing, the distribution frequency was 1.13/100 bp, in which the mutation frequency of introns was 0.35/100 bp, and that of exons was 0.78/100 bp. Fourteen SNP loci were detected in the high pH tolerance population of F. chinensis using fluorescence quantitative PCR. The observed heterozygosity (Ho) ranged from 0.2581 to 0.9390, the expected heterozygosity (He) ranged from 0.0595 to 0.4490, and the polymorphism information content (PIC) ranged from 0.0574 to 0.3731. The chi-square test result revealed that two SNP loci were related to high pH tolerance traits (P<0.05), namely P12 (P=0.036) and P27 (P=0.018). The results of this experiment provided basic data and methods for molecular marker assisted breeding of F. chinensis.