Genomic selection of orange-spotted grouper(Epinephelus coioides)based on multiplex PCR enrichment capture sequencing

查看全文 作　　者：Xinxin [1,2]Shan;Xinhui [1,3]Zhang;Zhiqiang [1]Ruan;Jieming [1]Chen;Qiong [1]Shi;Junmin [1]Xu;Xinxin [1]You 机构地区：[1]Shenzhen Key Lab of Marine Genomics,Guangdong Provincial Key Lab of Molecular Breeding in Marine Economic Animals,BGI Academy of Marine Sciences,BGI Marine,BGI,Shenzhen,518083,China;[2]Southern Marine Science and Engineering Guangdong Laboratory(Zhuhai),State Key Laboratory of Biocontrol,School of Marine Sciences,Sun Yat-Sen University,Guangzhou,510275,China;[3]College of Life Sciences,University of Chinese Academy of Sciences,Beijing,100049,China 出　　处：《Aquaculture and Fisheries》索引2023年第8卷第6期,共8页 基　　金：National Natural Science Foundation of China(No.31872572);Natural Science Foundation for Fundamental Research in Shenzhen(No.JCYJ20190812105801661);Shenzhen Dapeng Special Program for Industrial Development(No.KJYF202101-01). 摘　　要：Orange spotted grouper(Epinephelus coioides)is an important mariculture fish,and genomic breeding of this grouper species has been hindered due to lack of efficient genotyping tools.Here,we developed a single nucleotide polymorphism(SNP)genotyping technology based on multiplex PCR enrichment capture sequencing,which mainly aims at target area for high-throughput sequencing,and 741 SNPs were designed for genomic selection(GS)of growth and ammonia tolerance traits at the same time.The multiplex PCR enrichment capture sequencing assay showed that the genotyping efficiency was more than 99%in the orange-spotted grouper and the predictive accuracy of body weight and ammonia tolerance traits was 82%and 96%,respectively.More importantly,the average identity of the sequences with these SNPs aligned to the genomes of giant grouper(E.lanceolatus)and brown-marbled grouper(E.fuscoguttatus)were both over 96%.Test data showed that the SNP genotyping efficiency was more than 94%in both giant grouper and brown-marbled grouper.In summary,these results indicated that the development of SNP loci and genotyping approach based on the multiple PCR enrichment capture sequencing are suitable for GS of growth and ammonia tolerance traits in various grouper species,and it would provide technical support for practical grouper breeding. 关 键 词：GROUPER SNP genotyping Approach Multiple PCR enrichment Capture sequencing Genomic selection