Table 1

Sequences of the primers used in qRT-PCR"

Fig. 1

DEGs in different time points under infection The column with one black point represents the DEGs only in the corresponding set; the column with two or more black points linked by a solid line represents the intersection among the sets. "

Fig. 2

Determination of soft-thresholding power (β) a: scale-free topology fit index as a function of the soft-thresholding power, the red line represents that R2 is equal to 0.8. b: mean connectivity as a function of the soft-thresholding power. "

Fig. 3

Clustering dendrograms of genes and module detecting a: gene clustering on TOM-based dissimilarity. b: module division by dynamic tree cut, different colors represent different modules. c: module division after merging similar modules. "

Fig. 4

Heat map of the correlation between modules and traits Each row corresponds to a module, and each column corresponds to a trait. The correlation coefficient and the corresponding p-value are shown in each cell. The specific modules which significantly associated with V. dahliae infection are colored in red, and the corresponding numbers of genes and transcription factors are shown in the left cells. "

Fig. 5

GO functional and KEGG pathway enrichment analysis in the black module The vertical axis represents the enriched GO term or KEGG pathway, and the horizontal axis represents the ratio of enriched genes in the module. The point size represents the gene number enriched in the pathway, and the color represents the p-value corrected for multiple testing. "

Supplementary table 1

The GO enrichment of the specific modules (Biological process)"

Supplementary table 2

The GO enrichment of the specific modules (Molecular function)"

Supplementary table 3

The GO enrichment of the specific modules (Cellular component)"

Supplementary table 4

The KEGG enrichment of the specific modules"

Fig. 6

Gene co-expression networks of the specific modules which significantly associated with V. dahliae infection The genes with higher connectivity in the corresponding network are shown with larger circle sizes and darker colors. The transcription factors are indicated by triangles, with other genes being indicated by circles. a: Gene co-expression network of the black module. b: Gene co-expression network of the mediumpurple3 module. c: Gene co-expression network of the darkolivegreen module. d: Gene co-expression network of the plum3 module. e: Gene co-expression network of the mediumpurple2 module. "

Table 2

Function annotation of the hub genes in the modules associating with V. dahliae infection"

Supplementary table 5

Function annotation of interacting genes of the hub genes"

Fig. 7

Expression analysis of the hub genes a: expression analysis by qRT-PCR, the bars indicate standard deviation of three replications. b: heat map of the hub genes. *: p < 0.05, **: p < 0.01. "