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Genome survey and high-density genetic map construction provide genomic and genetic resources for the Pacific White Shrimp Litopenaeus vannamei
Yu, Yang1; Zhang, Xiaojun1; Yuan, Jianbo1; Li, Fuhua1; Chen, Xiaohan2; Zhao, Yongzhen2; Huang, Long3; Zheng, Hongkun3; Xiang, Jianhai1
2015-10-27
Source PublicationSCIENTIFIC REPORTS
Volume5Issue:15612Pages:1-14
SubtypeArticle
AbstractThe Pacific white shrimp Litopenaeus vannamei is the dominant crustacean species in global seafood mariculture. Understanding the genome and genetic architecture is useful for deciphering complex traits and accelerating the breeding program in shrimp. In this study, a genome survey was conducted and a high-density linkage map was constructed using a next-generation sequencing approach. The genome survey was used to identify preliminary genome characteristics and to generate a rough reference for linkage map construction. De novo SNP discovery resulted in 25,140 polymorphic markers. A total of 6,359 high-quality markers were selected for linkage map construction based on marker coverage among individuals and read depths. For the linkage map, a total of 6,146 markers spanning 4,271.43 cM were mapped to 44 sex-averaged linkage groups, with an average marker distance of 0.7 cM. An integration analysis linked 5,885 genome scaffolds and 1,504 BAC clones to the linkage map. Based on the high-density linkage map, several QTLs for body weight and body length were detected. This high-density genetic linkage map reveals basic genomic architecture and will be useful for comparative genomics research, genome assembly and genetic improvement of L. vannamei and other penaeid shrimp species.
DOI10.1038/srep15612
Indexed BySCI
Language英语
WOS IDWOS:000363454300003
Citation statistics
Cited Times:46[WOS]   [WOS Record]     [Related Records in WOS]
Document Type期刊论文
Identifierhttp://ir.qdio.ac.cn/handle/337002/73924
Collection实验海洋生物学重点实验室
Affiliation1.Chinese Acad Sci, Inst Oceanol, Key Lab Expt Marine Biol, Qingdao 266071, Peoples R China
2.Guangxi Acad Fishery Sci, Guangxi Key Lab Aquat Genet Breeding & Healthy Aq, Nanning 530021, Peoples R China
3.Biomarker Technol Corp, Beijing 101300, Peoples R China
First Author AffilicationKey Laboratory of Experimental Marine Biology, Institute of Oceanology, Chinese Academy of Sciences
Recommended Citation
GB/T 7714
Yu, Yang,Zhang, Xiaojun,Yuan, Jianbo,et al. Genome survey and high-density genetic map construction provide genomic and genetic resources for the Pacific White Shrimp Litopenaeus vannamei[J]. SCIENTIFIC REPORTS,2015,5(15612):1-14.
APA Yu, Yang.,Zhang, Xiaojun.,Yuan, Jianbo.,Li, Fuhua.,Chen, Xiaohan.,...&Xiang, Jianhai.(2015).Genome survey and high-density genetic map construction provide genomic and genetic resources for the Pacific White Shrimp Litopenaeus vannamei.SCIENTIFIC REPORTS,5(15612),1-14.
MLA Yu, Yang,et al."Genome survey and high-density genetic map construction provide genomic and genetic resources for the Pacific White Shrimp Litopenaeus vannamei".SCIENTIFIC REPORTS 5.15612(2015):1-14.
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