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Cite this paper: |
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GU Ying, LU Cuiyun, ZHANG Xiaofeng, LI Chao, YU Juhua, SUN Xiaowen. Genetic mapping and QTL analysis for body weight in Jian carp (Cyprinus carpio var. Jian) compared with mirror carp (Cyprinus carpio L.)[J]. Journal of Oceanology and Limnology, 2015, 33(3): 636-649 |
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Genetic mapping and QTL analysis for body weight in Jian carp (Cyprinus carpio var. Jian) compared with mirror carp (Cyprinus carpio L.) |
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| GU Ying1, LU Cuiyun1,2, ZHANG Xiaofeng1, LI Chao1, YU Juhua3, SUN Xiaowen1 |
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1 Heilongjiang River Fisheries Research Institute, Chinese Academy of Fishery Sciences, Harbin 150070, China;
2 College of Fisheries and Life Sciences, Shanghai Ocean University, Shanghai 201306, China;
3 Freshwater Fisheries Research Center, Chinese Academy of Fishery Sciences, Wuxi 214081, China |
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| Abstract: |
| We report the genetic linkage map of Jian carp (Cyprinus carpio var. Jian). An F 1 population comprising 94 Jian carp individuals was mapped using 254 microsatellite markers. The genetic map spanned 1 381.592 cM and comprised 44 linkage groups, with an average marker distance of 6.58 cM. We identified eight quantitative trait loci (QTLs) for body weight (BW) in seven linkage groups, explaining 12.6% to 17.3% of the phenotypic variance. Comparative mapping was performed between Jian carp and mirror carp (Cyprinus carpio L.), which both have 50 chromosomes. One hundred and ninety-eight Jian carp marker loci were found in common with the mirror carp map, with 186 (93.94%) showing synteny. All 44 Jian carp linkage groups could be one-to-one aligned to the 44 mirror carp linkage groups, mostly sharing two or more common loci. Three QTLs for BW in Jian carp were conserved in mirror carp. QTL comparison suggested that the QTL confidence interval in mirror carp was more precise than the homologous interval in Jian carp, which was contained within the QTL interval in Jian carp. The syntenic relationship and consensus QTLs between the two varieties provide a foundation for genomic research and genetic breeding in common carp. |
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| Key words:
Jian carp|mirror carp|body weight|linkage map|QTL|comparative mapping
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| Received: 2014-08-18 Revised: 2014-10-21 |
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References:
Churchill G, Doerge R. 1994. Empirical threshold values for quantitative trait mapping. Genetics, 138 : 963-971.
Doerge R, Churchill G. 1996. Permutation tests for multiple loci affecting a quantitative character. Genetics, 142 : 285-294.
Ellwood S, Phan H, Jordan M, Hane J, Torres A, Avila C, Cruz-Izquierdo S, Oliver R. 2008. Construction of a comparative genetic map in faba bean (Vicia faba L.); conservation of genome structure with Lens culinaris. BMC Genomics, 9 : 380.
Gu Y, Li C, Lu C, Zheng X, Yu J, Sun X. 2012. Microsatellite markers for parentage identification in Jian Carp (Cyprinus carpio var. Jian). Hereditas, 34 : 1 447-1 455. (in Chinese with English abstract)
Hou N, Li D, Li Y, Lu C, Sun X, Liang L. 2008. Development of 10 tri-and tetranucleotide microsatellite loci for population studies in the common carp (Cyprinus carpio L.). M ol. E col. N ote, 8 : 1 357-1 359.
Jin S, Zhang X, Jia Z, Fu H, Zheng X, Sun X. 2012. Genetic linkage mapping and genetic analysis of QTL related to eye cross and eye diameter in common carp (Cyprinus carpio L.) using microsatellites and SNPs. Aquaculture, 358-359 : 176-182.
Kalo P, Seres A, Taylor S, Jakab J, Kevei Z, Kereszt A, Endre G, Ellis T, Kiss G. 2004. Comparative mapping between Medicagosativa and Pisumsativum. Mol. Genet.Genomics, 272 : 235-246.
Li H, Liu N, Pu T, Wei K, Yu J, Li J, Tang Y. 2012. SNPs identification and the correlation analysis with weight gain of IGF-Ia in Cyprinus carpio var. Jian. Journal of Shanghai Ocean University, 21 : 7-13. (in Chinese with English abstract)
Liu J, Zhang Y, Chang Y, Liang L, Lu C, Zhang X, Xu M, Sun X. 2009. Mapping QTLs related to head length, eye diameter and eye cross of common carp (Cyprinus carpio L.). Hereditas, 31 : 508-514. (in Chinese with English abstract)
Lu C, Mao R, Li O, Geng L, Sun X, Liang L. 2009. Isolation and characterization of polymorphic tri-and tetranucleotide repeat microsatellite loci in common carp (Cyprinus carpio). Journal of Agricultural Biotechnology, 17 : 979-987. (in Chinese with English abstract)
Lu C, Quan Y, Li D, Sun X, Liang L. 2007. Population structure analysis of common carp of Yangtze River and Heilongjiang River using EST-SSRs markers. Journal of Agricultural Biolotechnology, 15 : 947-952. (in Chinese with English abstract)
Mao H, Sun J, Xue S, Geng X. 2007. Karyotype investigation and analysis on cultured silver carp and Cyprinus carpio var. Jian in Tianjin. Modern Fisheries Information, 22 : 8-17. (in Chinese)
Sambrook J, Russell D. 2001. Molecular Cloning: A Laboratory Manual, 3rd edn. Cold Spring Harbor Press, Cold Spring Harbor, NY.
Sun X, Jia Z, Wei D, Lu C, Liang L. 2005. Comparison between magnetic beads enriched and small inserted fragment library for microsatellite sequences of common carp. Journal of Fishery Sciences of China, 12 : 126-132. (in Chinese with English abstract)
Sun X, Zhang J, Shi Y, Wang J, Gong Y. 1995. Studies on the genetic characteristic of Jian carp (Cyprinus carpio var.Jian) in China. Aquaculture, 137 : 271-284.
Tao W, Ma L, Ruan R, Yu J. 2011. SNP loci associated with weight gain on growth hormone receptor genes in Cyprinus carpio var. Jian. Acta Hydrobiologica Sinica, 35 : 622-629. (in Chinese with English abstract)
Wei D, Lou Y, Sun X, Shen J. 2001. Isolation of microsatellite markers in the common carp (Cyprinus carpio). Zoological Research, 22 : 238-241. (in Chinese with English abstract)
Xu P, Li J, Li Y, Cui R, Wang J, Wang J, Zhang Y, Zhao Z, Sun X. 2011. Genomic insight into the common carp (Cyprinus carpio) genome by sequencing analysis of BAC-end sequences. BMC Genomics, 12 : 188.
Xu Y, Zhang X, Zheng X, Kuang Y, Lu C, Cao D, Yin S, Li C, Sun X. 2013. Studies on quantitative trait loci related to superoxide dismutase in mirror carp (Cyprinus carpio L.).Aquaculture Research, 44 : 1 860-1 871.
Zhang J, Sun X. 2006. Disclosure and analysis of integrated breeding techniques of Jian carp (Cyprinus carpio var. jian). Chinese Aquatic Products, 69-72. (in Chinese)
Zhang J, Sun X. 2007. Study on selective breeding in new strain of Cyprinus carpio var. Jian. Journal of Fisheries of China, 31 : 287-292. (in Chinese with English abstract)
Zhang T, Zhang X, Tan Z, Cao Z, Wang X, Li W, Chu Z, Sun X. 2011. Mapping and genetic effect analysis of quantitative trait loci related to body length in mirror carp (Cyprinus carpio L.). Hereditas, 33 : 1 245-1 250. (in Chinese with English abstract)
Zhang X, Zhang Y, Zheng X, Kuang Y, Zhao Z, Zhao L, Li C,Jiang L, Cao D, Lu C, Xu P, Sun X. 2013. A consensus linkage map provides insights on genome character and evolution in common carp (Cyprinus carpio L.). Mar.Biotechnol., 15 : 275-312.
Zhang Y, Ling L, Chang Y, Hou N, Lu C, Sun X. 2007.Mapping and genetic effect analysis of quantitative trait loci related to body size in common (Cyprinus carpio L.).Hereditas, 29 : 1 243-1 248. (in Chinese with English abstract)
Zhang Y, Wang S, Li J, Zhang X, Jiang L, Xu P, Lu C, Wan Y,Sun X. 2013. Primary genome scan for complex body shape-related traits in the common carp Cyprinus carpio.Journal of Fish Biology, 82 : 125-140.
Zhang Y, Xu P, Lu C, Kuang Y, Zhang X, Cao D, Li C, Chang Y, Hou N, Li H, Wang S, Sun X. 2011. Genetic linkage mapping and analysis of muscle fiber-related QTLs in common carp (Cyprinus carpio L.). Mar. Biotechnol., 13 : 376-392.
Zheng X, Cao D, Kuang Y, Zhang X, Lu C, Li C, Sun X. 2012.Quantitative trait loci analysis for body weight and standard length in mirror carp. Journal of Fishery Sciences of China, 19 : 189-195. (in Chinese with English abstract)
Zheng X, Kuang Y, Zhang X, Lu C, Cao D, Li C, Sun X. 2011.A genetic linkage map and comparative genome analysis of common carp (Cyprinus carpio L.) using microsatellites and SNPs. Mol. Genet. Genomics, 286 : 261-277.
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