Evaluation of genomic selection for high salinity tolerance traits in Pacific white shrimp Litopenaeus vannamei

The Pacific white shrimp (Litopenaeus vannamei) can tolerate wide range of salinity from 0.5 to 40. However, the growth and survival rate of shrimp is relatively low when they are cultured in high salinity seawater (>40). There is a large area of high salinity water which could be utilized for shrimp aquaculture. It is necessary to select new varieties of shrimp with high salinity tolerance, which can be cultured in these areas. In this study, the genetic parameters and genomic prediction accuracy on high salinity tolerance traits of Litopenaeus vannamei were evaluated using genome-wide SNPs. The survival time, lethal salinity and survival status of shrimp during high salinity treatments were recorded as phenotypes for each individual. The heritabilities of three phenotypes including survival time, lethal salinity and survival status were 0.38 +/- 0.1, 0.40 +/- 0.1, 0.5 +/- 0.1, respectively. Among different GS models, GBLUP and BayesB showed similar prediction accuracy. The prediction accuracy of GBLUP for survival time, lethal salinity, and survival state of shrimp were 0.62 +/- 0.03, 0.64 +/- 0.04, and 0.76 +/- 0.01, respectively. Compared with traditional pedigree selection (PBLUP), GS models showed a higher prediction accuracy by up to 12.1%. In addition, the optimal training population size was predicted to be around 1000, in which the prediction accuracy could rise to around 0.9. These results indicate that the heritability of high salinity tolerance traits of shrimp is medium to high heritability, and the genomic selection is superior to traditional selection approach. This study provides important guidance for genomic selection of shrimp tolerant to high salinity.

Automated summary

This study evaluated the genetic parameters and genomic prediction accuracy of high salinity tolerance traits in Pacific white shrimp and found that genomic selection is superior to traditional selection methods. The high salinity tolerance traits of shrimp have medium to high heritabilities, providing important guidance for genomic selection of shrimp tolerant to high salinity.