Screening of SNPs in GHRH and Association Analysis with Growth Traits in Grass Carp (Ctenopharyngodon idella)
SUN Xue1,2, LI Sheng-Jie1,*, DU Jin-Xing1, JIANG Peng1, ZHOU Jia-Hui1,2, BAI Jun-Jie1
1 Pearl River Fisheries Research Institute, Chinese Academy of Fisheries Sciences, Key Laboratory of Tropical and Subtropical Fishery Resource Application and Cultivation, China Ministry of Agriculture, Guangzhou 510380, China; 2 National Demonstration Center for Experimental Fisheries Science Education, Shanghai Ocean University, Shanghai 201306, China
Abstract：Growth hormone-releasing hormone (GHRH) plays an important role in regulating the release of growth hormone in animals. In order to study the relationship between the GHRH gene polymorphism and growth traits in grass carp (Ctenopharyngodon idella), the cDNA and DNA sequence of GHRH gene (GenBank No. 2446387) were obtained by PCR amplification. Total length of cDNA and DNA sequence of GHRH were 602 and 5 244 bp, respectively, including 5 exons and 4 introns. Through direct sequencing, 12 SNP were identified in the DNA sequence, which located at 670, 1 798, 2 340, 2 782, 3 925, 4 227, 4 371, 4 420, 4 497, 4 976, 5 025 and 5 232 bp, respectively. After analysis with SNaPshot technique and General linear model, T+3925C, G+4227A, T+4420A, C+4497T, A+4976G and G+5025T were linked to form haplotype marker D1, and 4 SNPs were shown to have significant correlation with the growth traits in grass carp, which were C+1798T, T+2340C, A+2782T and haplotype D1 marker, respectively. The body weight in individuals with CC genotype in C+1798T was significantly higher than TT genotype (P<0.05); the body weight, body length, body height and head length in individuals with TT genotype in T+2340C were significantly higher than CT genotype (P<0.05); the body weight and body length in individuals with AA genotype in A+2782T were significantly higher than the other 2 genotypes (P<0.05); the body weight in individuals with EE genotype in haplotype D1 (TTGGTTCCAAGG) were significantly higher than the other 2 genotype (P<0.05). The linkage disequilibrium analysis of the 4 markers showed that the 2 combinations were in a strong linkage disequilibrium state (D'>0.8), which included 6 haplotypes: H1 (CTAE), H2 (TTTF), H3 CTTF), H4 (CTTE), H5 (CCTE) and H6 (TTAE). The body weight in haplotype combination of H1/H1 (CCTTAAEE) was significantly higher than that of other haplotype combinations (except H1/H3, P<0.01), which was 9.96% higher than the average body weight of the population. In conclusion, C+1798T, T+2340C, A+2782T, haplotype D1 markers and haplotype combination H1/H1 in GHRH were significantly correlated with growth traits, which provides candidate markers for marker assisted breeding in grass carp, and contributes to accelerate the breeding process of grass carp.
孙雪, 李胜杰, 杜金星, 姜鹏, 周家辉, 白俊杰. 草鱼GHRH基因SNPs的筛选及其与生长性状的关联分析[J]. 农业生物技术学报, 2021, 29(5): 963-972.
SUN Xue, LI Sheng-Jie, DU Jin-Xing, JIANG Peng, ZHOU Jia-Hui, BAI Jun-Jie. Screening of SNPs in GHRH and Association Analysis with Growth Traits in Grass Carp (Ctenopharyngodon idella). 农业生物技术学报, 2021, 29(5): 963-972.
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