文献类型： 外文期刊
作者： Zhou, Qian 1 ; Lu, Sheng 1 ; Liu, Yang 1 ; Zhou, Bo 3 ; Chen, Songlin 1 ;
作者机构： 1.Chinese Acad Fishery Sci, Yellow Sea Fisheries Res Inst, State Key Lab Mariculture Biobreeding & Sustainabl, Qingdao 266071, Shandong, Peoples R China
2.Shandong Key Lab Marine Fishery Biotechnol & Gene, Qingdao 266071, Shandong, Peoples R China
3.Wanning Linlan Aquaculture Co LTD, Wanning 571528, Hainan, Peoples R China
4.Chinese Acad Fishery Sci, Yellow Sea Fisheries Res Inst, Natl Key Lab Mariculture Biobreeding & Sustainable, 106 Nanjing Rd, Qingdao 266071, Shandong, Peoples R China
关键词： Leopard coral grouper; Plectropomus leopardus; SNP array; Aquaculture
期刊名称：AQUACULTURE （ 影响因子：4.5； 五年影响因子：4.6 ）
ISSN： 0044-8486
年卷期： 2024 年 578 卷
页码：
收录情况： SCI
摘要： Single nucleotide polymorphism (SNP) genotyping array is a powerful tool for providing information on poly-morphic variations of species of interest. These genomic variations can be used to investigate the genetic architecture of complex traits, population structures, and genomic selection of breeding programs. The aquaculture of the leopard coral grouper (Plectropomus leopardus), is rapidly developing in South China and Southeast Asia. However, the lack of a high-efficient genotyping platform has hampered the progress of both genetic studies and selective breeding practices of this fish. Here we developed and evaluated a 20 K SNP array namely "DongXin-I" for P. leopardus. Using the genome re-sequencing data of 730 leopard coral groupers, we identified over 3.67 million SNPs, from which 20,737 loci, with even distribution across the genome, were finally involved in the SNP array. Evaluation of the array performance with 232 fish showed a high overall SNP call rates (> 99%) and an average minor allele frequency (MAF) of 0.312. Comparison of genotyping results of 87 fish from both the "DongXin-I" array and genome resequencing demonstrated a high genotyping repeatability and accurate per-formance of the genotyping array. Furthermore, using the gentyping results generated by the "DongXin-I" array, we revealed the genetic structure of breeding populaitons currently used the in Hainan Province. To summarize, the "DongXin-I" array should be a useful tool for the genetic studies and genomic selection breeding in the aquaculture industry of the coral leopard grouper.
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