Abstract
Acute hepatopancreatic necrosis disease (AHPND) is a major bacterial disease in Pacific white shrimp Litopenaeus vannamei farming, which is caused by Vibrio parahaemolyticus. AHPND has led to a significant reduction of shrimp output since its outbreak. Selective breeding of disease-resistant broodstock is regarded as a key strategy in solving the disease problem. Understanding the relationship between genetic variance and AHPND resistance is the basis for marker-assisted selection in shrimp. The purpose of this study was to identify single nucleotide polymorphisms (SNPs) associated with the resistance against AHPND in L. vannamei. In this work, two independent populations were used for V. parahaemolyticus challenge and the resistant or susceptible shrimp were evaluated according to the survival time after Vibrio infection. The above two populations were genotyped separately by a SNP panel designed based on the target sequencing platform using a pooling strategy. The SNP panel contained 508 amplicons from DNA fragments distributed evenly along the genome and some immune-related genes of L. vannamei. By analyzing the allele frequency in the resistant and susceptible groups, 30 SNPs were found to be significantly associated with the resistance of the shrimp against V. parahaemolyticus infection (false discovery rate corrected at P < 0.05). Three SNPs were further validated by individual genotyping in all samples of population 1. Our study illustrated that target sequencing and pooling sequencing were effective in identifying the markers associated with economic traits, and the SNPs identified in this study could be used as molecular markers for breeding disease-resistant shrimp.
Highlights
The Pacific white shrimp Litopenaeus vannamei, which naturally distributed along the Pacific coasts of Central and South America, has become the primary cultivated shrimp species into many regions of the world (Lu et al, 2017)
Acute hepatopancreatic necrosis disease (AHPND) has been considered as one of the main problems that hinders the rapid development of the shrimp aquaculture industry
No research about the selection of AHPND-resistant broodstock was reported for L. vannamei until now
Summary
The Pacific white shrimp Litopenaeus vannamei, which naturally distributed along the Pacific coasts of Central and South America, has become the primary cultivated shrimp species into many regions of the world (Lu et al, 2017). Since it was introduced in China into the 1980s, it has become the most dominant aquaculture shrimp species in China (Lu et al, 2016; Wang et al, 2017). It was reported that Vibrio parahaemolyticus carrying the Photorhabdus insect-related (Pirvp) binary toxin was the pathogenic agent for AHPND (Lee et al, 2015)
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