Fig. 2

Significant regions associated with daily feed intake. a Linkage disequilibrium plot for the eight SNPs on GGA1 showing significant association with daily feed intake in univariate and bivariate GWAS. Block 2 that contains the most significant SNP, i.e. rs315069556 for daily feed intake in the laying period between 57 and 60 weeks, is in very high linkage disequilibrium (r² > 0.99) with surrounding SNPs. b Linkage disequilibrium plot for the SNPs on GGA4 showing significant association with daily feed intake after conditional analysis in the laying period between 37 and 40 weeks. c, d Linkage disequilibrium plots for the SNPs on GGA1 and GGA27 showing significant association with daily feed intake after conditional analysis in the laying period between 57 and 60 weeks. Solid lines mark the identified blocks. e Genotype effect plot of two leading SNPs for daily feed intake in the first (between 37 and 40 weeks) and second laying periods (between 57 and 60 weeks), respectively. **(P < 0.01) indicates significant differences among groups; decimals inside the bars of e indicate genotype frequency; SNP1 = rs14916642; SNP2 = rs315069556