Yu, Yang1,2,4; Luo, Zheng1,5; Wang, Quanchao1,3,4; Zhang, Qian1,5; Zhang, Xiaojun1,2,4; Xiang, Jianhai1,2; Li, Fuhua1,2,4,6
发表期刊AQUACULTURE
ISSN0044-8486
2020-11-15
卷号528页码:8
关键词Molecular breedingPooling genotypingTarget sequencingSNP genotyping
DOI10.1016/j.aquaculture.2020.735549
通讯作者Li, Fuhua(fhli@qdio.ac.cn)
英文摘要The Pacific white shrimp Litopeneaus vannamei (L. vannamei) is a worldwide aquaculture species and selection of high performance germplasm is urgently needed. Application of molecular breeding method, such as marker assisted selection (MAS) or genomic selection (GS), is an efficient approach to accelerate the breeding program for high-quality germplasm. However, lack of cost-effective genotyping method is the main obstacle for their applications in shrimp breeding program. In this study, we developed a high throughput SNP genotyping method based on AmpliSeq target sequencing. A total of 581 amplicons including the genome-wide distributed markers, immune-related genes, WSSV resistance related SNPs, growth and sex related SNPs were selected and could be genotyped simultaneously. Totally 10 samples were used for genotyping and 2130 high quality SNPs were genotyped. Through analyzing the genotyped SNPs, the genetic relationship of samples could be accurately reconstructed. Besides, the pooling genotyping method using SNP panel was evaluated. It illustrated that the pooling genotyping method was reliable with read depth at 200. Based on the read depth of each amplicons, the panel was further optimized to 508 amplicons, which will enhance the sequencing uniformity and improve the efficiency of the panel. This study provided a useful genetic tool and a new method for genetic study. It will accelerate the application of MAS and GS in shrimp breeding program.
资助机构National Key R&D Program of China; Strategic Priority Research Program of the Chinese Academy of Sciences; China Agriculture Research System-48
收录类别SCI
语种英语
关键词[WOS]GENOME-WIDE ASSOCIATION; LITOPENAEUS-VANNAMEI; RESISTANCE; SELECTION; DISEASE; IDENTIFICATION
研究领域[WOS]Fisheries; Marine & Freshwater Biology
WOS记录号WOS:000553684000026
引用统计被引频次：3[WOS][WOS记录][WOS相关记录]
文献类型期刊论文
条目标识符http://ir.yic.ac.cnhttp://ir.yic.ac.cn/handle/133337/28596
专题海岸带生物学与生物资源利用重点实验室
海岸带生物学与生物资源利用重点实验室_海岸带生物学与生物资源保护实验室
通讯作者Li, Fuhua作者单位1.Chinese Acad Sci, Inst Oceanol, Key Lab Expt Marine Biol, Qingdao 266071, Peoples R China
2.Qingdao Natl Lab Marine Sci & Technol, Lab Marine Biol & Biotechnol, Qingdao 266237, Peoples R China
3.Chinese Acad Sci, Yantai Inst Coastal Zone Res, Yantai 264003, Peoples R China
4.Chinese Acad Sci, Ctr Ocean Megasci, Qingdao 266071, Peoples R China
5.Univ Chinese Acad Sci, Beijing 100049, Peoples R China
6.Chinese Acad Sci, Innovat Seed Design, Wuhan, Peoples R China
推荐引用方式
GB/T 7714Yu, Yang,Luo, Zheng,Wang, Quanchao,et al. Development of high throughput SNP genotyping approach using target sequencing in Pacific white shrimp and its application for genetic study[J]. AQUACULTURE,2020,528:8.
APAYu, Yang.,Luo, Zheng.,Wang, Quanchao.,Zhang, Qian.,Zhang, Xiaojun.,...&Li, Fuhua.(2020).Development of high throughput SNP genotyping approach using target sequencing in Pacific white shrimp and its application for genetic study.AQUACULTURE,528,8.
MLAYu, Yang,et al."Development of high throughput SNP genotyping approach using target sequencing in Pacific white shrimp and its application for genetic study".AQUACULTURE 528(2020):8.
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