| 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 Author | Tong, Jingou(jgtong@ihb.ac.cn) |
| 2018-04-02 | |
| Source Publication | BMC GENOMICS
 |
| ISSN | 1471-2164 |
| Volume | 19Pages:13 |
| Abstract | Background: 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. |
| Keyword | Genetic map QTL mapping Growth-related traits Sex Candidate gene Cyprinus carpio Haematopterus |
| DOI | 10.1186/s12864-018-4613-1 |
| Funding Organization | 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 ; 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 By | SCI ; SCI |
| Language | 英语 |
| Funding Project | Chinese Academy of Sciences[XDA0810405] ; FEBL Program[2016FBZ05] ; MOST 973 Project of China[2010CB126305] |
| WOS Research Area | Biotechnology & Applied Microbiology ; Genetics & Heredity |
| WOS Subject | Biotechnology & Applied Microbiology ; Genetics & Heredity |
| WOS ID | WOS:000429820600004 |
| WOS Keyword | ATLANTIC SALMON ; PROVIDES INSIGHTS ; DRAFT GENOME ; BODY-WEIGHT ; EVOLUTION ; LOCUS ; DNA ; FISHES ; CONSTRUCTION ; SEQUENCE |
| Publisher | BIOMED CENTRAL LTD |
| Funding Organization | 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 ; 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 |
| Citation statistics | |
| Document Type | 期刊论文 |
| Identifier | http://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 Author | Tong, Jingou |
| Affiliation | Chinese 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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