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Construction of a high-density genetic map and mapping of growth related QTLs in the grass carp (Ctenopharyngodon idellus)
Huang,Xiaoli1,2; Jiang,Yanxin1,2; Zhang,Wanting1; Cheng,Yingyin1; Wang,Yaping1,2; Ma,Xiaocui1,2; Duan,You1,2; Xia,Lei1,2; Chen,Yaxin1,2; Wu,Nan1; Shi,Mijuan1; Xia,Xiao-Qin1,2
2020-04-19
Source PublicationBMC Genomics
Volume21Issue:1Pages:1-12
Abstract

AbstractBackgroundGrass carp (Ctenopharyngodon idellus) are important species in Asian aquaculture. A draft genome for grass carp has already been published in 2015. However, there is still a requirement for a suitable genetic linkage map to arrange scaffolds on chromosomal frameworks. QTL analysis is a powerful tool to detect key locations for quantitative traits, especially in aquaculture. There no growth related QTLs of grass carp have been published yet. Even the growth trait is one of the focuses in grass carp culture.ResultsIn this study, a pair of distantly related parent grass carps and their 100 six-month-old full-sib offspring were used to construct a high-density genetic map with 6429 single nucleotide polymorphisms (SNPs) by 2b-RAD technology. The total length of the consensus map is 5553.43?cM with the average marker interval of 1.92?cM. The map has a good collinearity with both the grass carp draft genome and the zebrafish genome, and it assembled 89.91% of the draft genome to a chromosomal level. Additionally, according to the growth-related traits of progenies, 30 quantitative trait loci (QTLs), including 7 for body weight, 9 for body length, 5 for body height and 9 for total length, were identified in 16 locations on 5 linkage groups. The phenotypic variance explained for these QTLs varies from 13.4 to 21.6%. Finally, 17 genes located in these regions were considered to be growth-related because they either had functional mutations predicted from the resequencing data of the parents.ConclusionA high density genetic linkage map of grass carp was built and it assembled the draft genome to a chromosomal level. Thirty growth related QTLs were detected. After the cross analysis of Parents resequencing data, 17 candidate genes were obtained for further researches.

KeywordGrass carp Linkage map Growth-related trait Quantitative trait loci Single nucleotide polymorphism
DOI10.1186/s12864-020-6730-x
Language英语
WOS IDBMC:10.1186/s12864-020-6730-x
PublisherBioMed Central
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Document Type期刊论文
Identifierhttp://ir.ihb.ac.cn/handle/342005/35800
Collection水生生物分子与细胞生物学研究中心_期刊论文
Corresponding AuthorShi,Mijuan; Xia,Xiao-Qin
Affiliation1.Institute of Hydrobiology, the Chinese Academy of Sciences
2.University of Chinese Academy of Sciences
Recommended Citation
GB/T 7714
Huang,Xiaoli,Jiang,Yanxin,Zhang,Wanting,et al. Construction of a high-density genetic map and mapping of growth related QTLs in the grass carp (Ctenopharyngodon idellus)[J]. BMC Genomics,2020,21(1):1-12.
APA Huang,Xiaoli.,Jiang,Yanxin.,Zhang,Wanting.,Cheng,Yingyin.,Wang,Yaping.,...&Xia,Xiao-Qin.(2020).Construction of a high-density genetic map and mapping of growth related QTLs in the grass carp (Ctenopharyngodon idellus).BMC Genomics,21(1),1-12.
MLA Huang,Xiaoli,et al."Construction of a high-density genetic map and mapping of growth related QTLs in the grass carp (Ctenopharyngodon idellus)".BMC Genomics 21.1(2020):1-12.
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