Abstract：
Genetic variability within the same fish species could confer soybean meal (SBM) tolerance in some individuals, thus favoring growth. This study investigates the single-nucleotide polymorphisms (SNPs) in differentially expressed genes (DEGs) favoring SBM tolerance in higher-growth zebrafish (Danio rerio). In a previous work, nineteen families of zebrafish were fed a fish meal diet (100FM control diet) or SBM-based diets supplemented with saponin (50SBM + 2SPN-experimental diet), from juvenile to adult stages. Individuals were selected from families with a genotype-by-environment interaction higher (170 ± 18 mg) or lower (76 ± 10 mg) weight gain on 50SBM + 2SPN in relation to 100FM. Intestinal transcriptomic analysis using RNA-seq revealed six hundred and sixty-five differentially expressed genes in higher-growth fish fed 50SBM + 2SPN diet. In this work, using these results, 47 SNPs in DEGs were selected. These SNPs were genotyped by Sequenom in 340 zebrafish that were fed with a 50SBM + 2SPN diet or with 100FM diet. Marker-trait analysis revealed 4 SNPs associated with growth in 3 immunity-related genes (aif1l, arid3c, and cst14b.2) in response to the 50SBM + 2SPN diet (p-value < 0.05). Two SNPs belonging to aif1l y arid3c produce a positive (+19 mg) and negative (-26 mg) effect on fish growth, respectively. These SNPs can be used as markers to improve the early selection of tolerant fish to SBM diet or other plant-based diets. These genes can be used as biomarkers to identify SNPs in commercial fish, thus contributing to the aquaculture sustainability.
摘要：
同一鱼类物种内的遗传变异可以在某些个体中赋予豆粕（SBM）耐受性，从而有利于增长。这项研究调查了差异表达基因（DEGs）中的单核苷酸多态性（SNP），这些基因有利于高生长斑马鱼（Daniorerio）的SBM耐受性。在以前的工作中，斑马鱼的19个家庭饲喂鱼粉饮食（100FM对照饮食）或基于SBM的饮食，并补充了皂苷（50SBM2SPN实验饮食），从青少年到成人阶段。从相对于100FM，在50SBM2SPN上具有更高（170±18mg）或更低（76±10mg）的基因型与环境相互作用的家庭中选择个体。使用RNA-seq进行的肠道转录组学分析显示，饲喂50SBM2SPN饮食的高生长鱼中有六百六十五个差异表达基因。在这项工作中,利用这些结果，选择DEG中的47个SNP。这些SNP通过Sequenom在用50SBM+2SPN饮食或100FM饮食喂养的340条斑马鱼中进行基因分型。标记性状分析显示4个与3个免疫相关基因生长相关的SNP(aif1l，arid3c,和cst14b.2)响应50SBM+2SPN饮食(p值<0.05)。属于aif1lyarid3c的两个SNP对鱼类生长产生阳性（19mg）和阴性（-26mg）影响，分别。这些SNP可以用作标记以改善对SBM饮食或其他基于植物的饮食的耐受性鱼的早期选择。这些基因可以用作生物标志物来识别商业鱼类中的SNP，从而促进水产养殖的可持续性。
