IHB OpenIR  > 鱼类生物学及渔业生物技术研究中心  > 期刊论文
A high-resolution genetic linkage map and QTL fine mapping for growth-related traits and sex in the Yangtze River common carp (Cyprinus carpio haematopterus)
Feng, Xiu; Yu, Xiaomu; Fu, Beide; Wang, Xinhua; Liu, Haiyang; Pang, Meixia; Tong, Jingou
Corresponding AuthorTong, Jingou(jgtong@ihb.ac.cn)
2018-04-02
Source PublicationBMC GENOMICS
ISSN1471-2164
Volume19Pages:13
AbstractBackground: A high-density genetic linkage map is essential for QTL fine mapping, comparative genome analysis, identification of candidate genes and marker-assisted selection for economic traits in aquaculture species. The Yangtze River common carp (Cyprinus carpio haematopterus) is one of the most important aquacultured strains in China. However, quite limited genetics and genomics resources have been developed for genetic improvement of economic traits in such strain. Results: A high-resolution genetic linkage map was constructed by using 7820 2b-RAD (2b-restriction site-associated DNA) and 295 microsatellite markers in a F2 family of the Yangtze River common carp (C. c. haematopterus). The length of the map was 4586.56 cM with an average marker interval of 0.57 cM. Comparative genome mapping revealed that a high proportion (70%) of markers with disagreed chromosome location was observed between C. c. haematopterus and another common carp strain (subspecies) C. c. carpio. A clear 2:1 relationship was observed between C. c. haematopterus linkage groups (LGs) and zebrafish (Danio rerio) chromosomes. Based on the genetic map, 21 QTLs for growth-related traits were detected on 12 LGs, and contributed values of phenotypic variance explained (PVE) ranging from 16.3 to 38.6%, with LOD scores ranging from 4.02 to 11.13. A genome-wide significant QTL (LOD = 10.83) and three chromosome-wide significant QTLs (mean LOD = 4.84) for sex were mapped on LG50 and LG24, respectively. A 1.4 cM confidence interval of QTL for all growth-related traits showed conserved synteny with a 2. 06 M segment on chromosome 14 of D. rerio. Five potential candidate genes were identified by blast search in this genomic region, including a well-studied multi-functional growth related gene, Apelin. Conclusions: We mapped a set of suggestive and significant QTLs for growth-related traits and sex based on a high-density genetic linkage map using SNP and microsatellite markers for Yangtze River common carp. Several candidate growth genes were also identified from the QTL regions by comparative mapping. This genetic map would provide a basis for genome assembly and comparative genomics studies, and those QTL-derived candidate genes and genetic markers are useful genomic resources for marker-assisted selection (MAS) of growth-related traits in the Yangtze River common carp.
KeywordGenetic map QTL mapping Growth-related traits Sex Candidate gene Cyprinus carpio Haematopterus
DOI10.1186/s12864-018-4613-1
Funding OrganizationChinese Academy of Sciences ; Chinese Academy of Sciences ; Chinese Academy of Sciences ; Chinese Academy of Sciences ; FEBL Program ; FEBL Program ; FEBL Program ; FEBL Program ; MOST 973 Project of China ; MOST 973 Project of China ; MOST 973 Project of China ; MOST 973 Project of China ; Chinese Academy of Sciences ; Chinese Academy of Sciences ; Chinese Academy of Sciences ; Chinese Academy of Sciences ; FEBL Program ; FEBL Program ; FEBL Program ; FEBL Program ; MOST 973 Project of China ; MOST 973 Project of China ; MOST 973 Project of China ; MOST 973 Project of China ; Chinese Academy of Sciences ; Chinese Academy of Sciences ; Chinese Academy of Sciences ; Chinese Academy of Sciences ; FEBL Program ; FEBL Program ; FEBL Program ; FEBL Program ; MOST 973 Project of China ; MOST 973 Project of China ; MOST 973 Project of China ; MOST 973 Project of China ; Chinese Academy of Sciences ; Chinese Academy of Sciences ; Chinese Academy of Sciences ; Chinese Academy of Sciences ; FEBL Program ; FEBL Program ; FEBL Program ; FEBL Program ; MOST 973 Project of China ; MOST 973 Project of China ; MOST 973 Project of China ; MOST 973 Project of China
Indexed BySCI ; SCI
Language英语
Funding ProjectChinese Academy of Sciences[XDA0810405] ; FEBL Program[2016FBZ05] ; MOST 973 Project of China[2010CB126305]
WOS Research AreaBiotechnology & Applied Microbiology ; Genetics & Heredity
WOS SubjectBiotechnology & Applied Microbiology ; Genetics & Heredity
WOS IDWOS:000429820600004
WOS KeywordATLANTIC SALMON ; PROVIDES INSIGHTS ; DRAFT GENOME ; BODY-WEIGHT ; EVOLUTION ; LOCUS ; DNA ; FISHES ; CONSTRUCTION ; SEQUENCE
PublisherBIOMED CENTRAL LTD
Funding OrganizationChinese Academy of Sciences ; Chinese Academy of Sciences ; Chinese Academy of Sciences ; Chinese Academy of Sciences ; FEBL Program ; FEBL Program ; FEBL Program ; FEBL Program ; MOST 973 Project of China ; MOST 973 Project of China ; MOST 973 Project of China ; MOST 973 Project of China ; Chinese Academy of Sciences ; Chinese Academy of Sciences ; Chinese Academy of Sciences ; Chinese Academy of Sciences ; FEBL Program ; FEBL Program ; FEBL Program ; FEBL Program ; MOST 973 Project of China ; MOST 973 Project of China ; MOST 973 Project of China ; MOST 973 Project of China ; Chinese Academy of Sciences ; Chinese Academy of Sciences ; Chinese Academy of Sciences ; Chinese Academy of Sciences ; FEBL Program ; FEBL Program ; FEBL Program ; FEBL Program ; MOST 973 Project of China ; MOST 973 Project of China ; MOST 973 Project of China ; MOST 973 Project of China ; Chinese Academy of Sciences ; Chinese Academy of Sciences ; Chinese Academy of Sciences ; Chinese Academy of Sciences ; FEBL Program ; FEBL Program ; FEBL Program ; FEBL Program ; MOST 973 Project of China ; MOST 973 Project of China ; MOST 973 Project of China ; MOST 973 Project of China
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Cited Times:4[WOS]   [WOS Record]     [Related Records in WOS]
Document Type期刊论文
Identifierhttp://ir.ihb.ac.cn/handle/342005/29605
Collection鱼类生物学及渔业生物技术研究中心_期刊论文
Corresponding AuthorTong, Jingou
AffiliationChinese Acad Sci, Inst Hydrobiol, State Key Lab Freshwater Ecol & Biotechnol, Wuhan 430072, Hubei, Peoples R China
Recommended Citation
GB/T 7714
Feng, Xiu,Yu, Xiaomu,Fu, Beide,et al. A high-resolution genetic linkage map and QTL fine mapping for growth-related traits and sex in the Yangtze River common carp (Cyprinus carpio haematopterus)[J]. BMC GENOMICS,2018,19:13.
APA Feng, Xiu.,Yu, Xiaomu.,Fu, Beide.,Wang, Xinhua.,Liu, Haiyang.,...&Tong, Jingou.(2018).A high-resolution genetic linkage map and QTL fine mapping for growth-related traits and sex in the Yangtze River common carp (Cyprinus carpio haematopterus).BMC GENOMICS,19,13.
MLA Feng, Xiu,et al."A high-resolution genetic linkage map and QTL fine mapping for growth-related traits and sex in the Yangtze River common carp (Cyprinus carpio haematopterus)".BMC GENOMICS 19(2018):13.
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