Development and validation of a RAD-Seq target-capture based genotyping assay for routine application in advanced black tiger shrimp (Penaeus monodon) breeding programs

Background

The development of genome-wide genotyping resources has provided terrestrial livestock and crop industries with the unique ability to accurately assess genomic relationships between individuals, uncover the genetic architecture of commercial traits, as well as identify superior individuals for selection based on their specific genetic profile. Utilising recent advancements in de-novo genome-wide genotyping technologies, it is now possible to provide aquaculture industries with these same important genotyping resources, even in the absence of existing genome assemblies. Here, we present the development of a genome-wide SNP assay for the Black Tiger shrimp (Penaeus monodon) through utilisation of a reduced-representation whole-genome genotyping approach (DArTseq).

Results

Based on a single reduced-representation library, 31,262 polymorphic SNPs were identified across 650 individuals obtained from Australian wild stocks and commercial aquaculture populations. After filt...

背景
全基因组分型资源的发展，为陆生畜禽与作物产业赋予了独特的技术能力：可精准评估个体间的基因组亲缘关系、解析经济性状的遗传结构，同时可基于个体的特异性遗传图谱筛选用于选育的优良个体。依托当前从头全基因组分型技术的最新进展，即便缺乏现有基因组组装结果，如今也可为水产养殖业提供同等重要的分型资源。本研究基于简化基因组全基因组分型技术（DArTseq），构建了针对斑节对虾（Penaeus monodon）的全基因组单核苷酸多态性（Single Nucleotide Polymorphism, SNP）分型体系。

结果
基于单个简化基因组文库，研究团队从澳大利亚野生种群及商业养殖群体的650个个体中，共鉴定出31262个多态性SNP位点。经筛选……