Construction of a high-density linkage map and mapping of sex determination and growth-related loci in the mandarin fish (Siniperca chuatsi)

BMC Genomics

Research Article

Xing Ye¹  Junjian Dong¹  Maixin Lu¹  Chengfei Sun¹  Zhihang Chen²  Yuanyuan Tian²  Qingkai Zeng²  Yongchaox Niu³  Wushu Hu³  Jin Zhang⁴ 

[1] Key Laboratory of Tropical & Subtropical Fisheries Resource Application & Cultivation, Ministry of Agriculture, Pearl River Fisheries Research Institute, Chinese Academy of Fishery Sciences, No. 1, XingYu Road, Xi Lang, Fang Cun, PO, 510380, Guangzhou, Guangdong, China;Key Laboratory of Tropical & Subtropical Fisheries Resource Application & Cultivation, Ministry of Agriculture, Pearl River Fisheries Research Institute, Chinese Academy of Fishery Sciences, No. 1, XingYu Road, Xi Lang, Fang Cun, PO, 510380, Guangzhou, Guangdong, China;College of Fisheries and Life Science, Shanghai Ocean University, 201306, Shanghai, China;Total Genomics Solution (TGS) Institute, Shengzhen, 518000, Guangdong, China;YuShun Fisheries Company, 511500, Qingyuan, Guangdong, China;

关键词: Siniperca chuatsi;    Linkage map;    Sex determination;    Growth-related trait;    Quantitative trait locus;   

DOI  :  10.1186/s12864-017-3830-3

 received in 2016-12-18, accepted in 2017-05-30,  发布年份 2017

来源: Springer

【 摘 要 】

BackgroundThe mandarin fish (Siniperca chuatsi) is an important and widely cultured fish in China. However, the lack of selective breeding of mandarin fish in previous decades has resulted in a decline in the growth rate of pond-cultured fish, a shortened period of sexual maturity, and reduced disease resistance; these issues seriously affect the quality and safety of the fish products. Therefore, it is necessary to establish a selective breeding program for the mandarin fish to improve the economical traits of the fish and to sustain the development of the mandarin fish industry.ResultsWe constructed a high-density linkage map for it based on double digest restriction site associated DNA sequencing (ddRAD-Sequencing). This map contained 3283 dimorphic single nucleotide polymorphism markers and 24 linkage groups (LGs). The total map-length was 1972.01 cM, with an average interlocus distance of 0.61 cM. One significant quantitative trait locus (QTL) for sex determination trait was detected on LG23, which was supported by five markers, clustered between 60.27 and 68.71 cM. The highest logarithm of odds value (17.73) was located at 60.27 cM, near the marker r1_73194, accounting for 53.3% of the phenotypic variance. Genotypes of all the male fish on r1_33008 were homozygous, whereas those of all females were heterozygous. Thus, LG23 was considered a sex-related linkage group. Eleven significant QTLs, for three growth traits, at two growth stages and the increased values were distributed on four LGs; their contributions to the phenotypic variation were quite low (12.4–17.2%), suggesting that multiple genes affected the growth traits.ConclusionThis high-resolution genetic map provides a valuable resource for fine-mapping of important traits and for identification of sex-related markers that should facilitate breeding of all-female mandarin fish for aquaculture and mechanistic studies on sex determination.

【 授权许可】

CC BY   
© The Author(s). 2017