Key Laboratory of Sustainable Development of Marine Fisheries, Ministry of Agriculture, Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, 266071, Qingdao, China.
Laboratory for Marine Fisheries and Aquaculture, Qingdao National Laboratory for Marine Science and Technology, No. 1 Wenhai Road, Aoshanwei Town, Jimo, 266237, Qingdao, China.
Sci Rep. 2017 Aug 11;7(1):7874. doi: 10.1038/s41598-017-08256-8.
A high-resolution genetic linkage map is an essential tool for decoding genetics and genomics in non-model organisms. In this study, a linkage map was constructed for the swimming crab (Portunus trituberculatus) with 10,963 markers; as far as we know, this number of markers has never been achieved in any other crustacean. The linkage map covered 98.85% of the whole genome with a mean marker interval of 0.51 cM. The de novo assembly based on genome and transcriptome sequencing data enabled 2,378 explicit annotated markers to be anchored to the map. Quantitative trait locus (QTL) mapping revealed 10 growth-related QTLs with a phenotypic variance explained (PVE) range of 12.0-35.9. Eight genes identified from the growth-related QTL regions, in particular, RE1-silencing transcription factor and RNA-directed DNA polymerase genes with nonsynonymous substitutions, were considered important growth-related candidate genes. We have demonstrated that linkage mapping aided by de novo assembly of genome and transcriptome sequencing could serve as an important platform for QTL mapping and the identification of trait-related genes.
高分辨率遗传连锁图谱是解码非模式生物遗传和基因组学的重要工具。本研究构建了游泳蟹（Portunus trituberculatus）的连锁图谱，包含 10963 个标记；就我们所知，这一标记数量在任何其他甲壳动物中从未达到过。该连锁图谱覆盖了整个基因组的 98.85%，平均标记间隔为 0.51 cM。基于基因组和转录组测序数据的从头组装，使得 2378 个明确注释的标记能够锚定到图谱上。数量性状位点（QTL）作图揭示了 10 个与生长相关的 QTL，表型方差解释（PVE）范围为 12.0-35.9。从生长相关 QTL 区域鉴定的 8 个基因，特别是具有非同义取代的 RE1-沉默转录因子和 RNA 指导的 DNA 聚合酶基因，被认为是重要的生长相关候选基因。我们已经证明，通过基因组和转录组测序的从头组装进行连锁作图，可以作为 QTL 作图和性状相关基因鉴定的重要平台。
