Fig. 7

Weighted gene co-expression network analysis (WGCNA) of DEGs identified in apple peel after bag removal. a Hierarchical cluster tree showing 16 modules of co-expressed genes. Each of the 18,152 DEGs is represented by a leaf in the tree, and each of the modules by a major tree branch. The lower panel shows modules in designated colors. b Module-trait correlations and corresponding p-values (in parentheses). The left panel shows the 16 modules and the number of member genes. The color scale on the right shows module-trait correlations from − 1 (green) to + 1 (red). The left panel labeled ‘UFGT’ represents expression changes of MdUFGT, which encodes the enzyme that catalyzes the last step in anthocyanin biosynthesis, as a trait. The middle panel labeled ‘MYB1’ represents expression changes of MdMYB1, the key transcriptional factor activating anthocyanin biosynthesis, as a trait. The right panel labeled ‘Anthocyanin’ represents anthocyanin biosynthesis as a trait. c Cytoscape representation of co-expressed genes with edge weights ≥0.80 in the ‘darkolivegreen 4’ module. The edge number of genes ranges from 10 to 24 (color-coded using the scale on the right, from green to red). Member gene IDs and common names are given