Fig. 5
Cross-sectional analysis of differentially methylated genes and DEGs and GO enrichment of the interconnected genes. a Cross-analysis was performed between the DMR-related genes and DEGs. Red dots represent negatively related genes, and blue dots represent positively related genes. The y-axis represents the differences in methylation levels (%). The x-axis represents the differences in gene expression. FC, fold change. b, c Validation of the results obtained from BS-Seq and RNA-Seq via methylation-specific PCR and qRT-PCR analyses of three selected loci. STS1, VIT_216s0100g01100; EDS1, VIT_217s0000g07370; CML41, VIT_218s0001g11830. Functional annotations of the above genes were listed in Table 1. FC (fold change) was calculated using the ratio of the expression in the treated berries to that in the control. d GO enrichment of the interconnected genes obtained through the comparison of DMP-related genes and DEGs. The top 10 enriched GO categories are displayed. P values are corrected to –log10 (P values) ranging from 0 to infinity, and a lower P value (i.e., greater –log10 (P value)) indicates a higher intensity