Key Laboratory of Exploration and Utilization of Aquatic Genetic Resources Certified by Ministry of Education, College of Fisheries and Life Science, Shanghai Ocean University, 999 Hucheng Huan Road, Pudong New Area, Shanghai, 201306, China.
Shanghai Fisheries Technical Extension Station, Shanghai Fisheries Research Institute, Shanghai 200433, China.
Sci Rep. 2017 Jan 3;7:39826. doi: 10.1038/srep39826.
The Chinese mitten crab Eriocheir sinensis is the most economically important cultivated crab species in China, and its genome has a high number of chromosomes (2n = 146). To obtain sufficient markers for construction of a dense genetic map for this species, we employed the recently developed specific-locus amplified fragment sequencing (SLAF-seq) method for large-scale SNPs screening and genotyping in a F1 full-sib family of 149 individuals. SLAF-seq generated 127,677 polymorphic SNP markers, of which 20,803 valid markers were assigned into five segregation types and were used together with previous SSR markers for linkage map construction. The final integrated genetic map included 17,680 SNP and 629 SSR markers on the 73 linkage groups (LG), and spanned 14,894.9 cM with an average marker interval of 0.81 cM. QTL mapping localized three significant growth-related QTL to a 1.2 cM region in LG53 as well as 146 sex-linked markers in LG48. Genome-wide QTL-association analysis further identified four growth-related QTL genes named LNX2, PAK2, FMRFamide and octopamine receptors. These genes are involved in a variety of different signaling pathways including cell proliferation and growth. The map and SNP markers described here will be a valuable resource for the E. sinensis genome project and selective breeding programs.
中华绒螯蟹（Eriocheir sinensis）是中国最重要的经济养殖蟹种，其基因组具有大量的染色体（2n = 146）。为了获得足够的标记物来构建该物种的高密度遗传图谱，我们采用了最近开发的特异位点扩增片段测序（SLAF-seq）方法，对一个由 149 个个体组成的 F1 全同胞家系进行了大规模 SNP 筛选和基因分型。SLAF-seq 生成了 127677 个多态 SNP 标记物，其中 20803 个有效标记物被分配到五种分离类型，并与之前的 SSR 标记物一起用于连锁图谱构建。最终的整合遗传图谱包括 17680 个 SNP 和 629 个 SSR 标记物，分布在 73 个连锁群（LG）上，总长 14894.9cM，平均标记间隔为 0.81cM。QTL 作图将三个与生长相关的显著 QTL 定位到 LG53 的 1.2cM 区域和 LG48 的 146 个性别连锁标记上。全基因组 QTL 关联分析进一步鉴定了四个与生长相关的 QTL 基因，分别命名为 LNX2、PAK2、FMRFamide 和章鱼胺受体。这些基因参与了多种不同的信号通路，包括细胞增殖和生长。本研究中描述的图谱和 SNP 标记物将成为中华绒螯蟹基因组计划和选择育种计划的宝贵资源。
