Fig. 4

Response atlas of biotic and abiotic stresses in common bean. A Expression heatmap of differentially expressed genes in each experimental design for stress response. B Results of PCA analysis based on average FPKM values of samples from each group. Colours represent different tissues of the common bean. C Venn plot of differentially expressed genes in the common bean under biotic and abiotic stresses. D Co-expression network of five genes in the bHLH gene family. The shape of the nodes represents the type of gene (core, softcore, and shell genes), and the thickness of the connecting lines represents the degree of correlation between the two genes. E Proportion of core, softcore, shell, and cloud genes response to different biotic and abiotic stresses. The types of response are classified as positive (upregulated in stress samples) and negative (downregulated in stress samples). F Box plot of the expression level of core, softcore, shell, and cloud genes in the common bean genome (FPKM). Each point represents the mean value of the expression of the gene in one group