Fig. 2
Genome-wide association study of glycogen content and candidate gene analysis in different oyster populations. a The Manhattan and QQ plots of glycogen content in oysters. The negative log10-transformed P-values from a genome-wide scan are plotted against position on each of the 10 chromosomes. Red horizontal dashed line indicates the genome-wide significance threshold. b The verification of significant loci using 190 K SNP chips with 300 individuals collected from Qingdao in 2013. c The 0.1-Mb region on each side of the peak SNP in scaffold389, and the position of peak SNP is indicated by a vertical red line with the red triangle. d The gene base analysis (GBA) of CYP17A1 by the PCR with 100 individuals collected from Qingdao in 2013. After the identification of SNPs, the association analysis was conducted using the SHEsis software (http://analysis.bio-x.cn/) and five haplotypes were identified. Furthermore, the association between the SNP loci or related haplotypes and glycogen content was analyzed. e The expression pattern of CYP17A1, PEPCK, and G6Pase in high and low glycogen content populations. Significant difference was calculated by the t-test (** indicates P < 0.01, * indicates P < 0.05, n = 15)