Figure 4

Differentially expressed genes (DEGs) and selected annotated cellular processes in bright yellow islands (BYIs) of CGMMV infected cucumber leaves at early and late post-recovery stages compared to the corresponding dark green surrounding tissues. (a) Venn diagram showing the overlap between DEGs in BYIs of CGMMV infected cucumber leaves at the early and late post-recovery stages compared to the corresponding dark green surrounding tissues. (b) Venn diagram showing both unique and overlapping distribution of up-regulated and down-regulated DEGs found in the BYIs at the early and late post-recovery stages compared to the corresponding dark green surrounding tissues. Early, 'early post-recovery stage' BYIs; Late, 'late post-recovery stage' BYIs; up, upregulated DEGs; down, downregulated DEGs. (c) Distribution of 219 DEGs out of the total 233 downregulated DEGs, shared by early and late post-recovery stage BYIs, among the various annotated cellular processes associated with the photosynthesis pathway. Yellow colored columns, no. of DEGs downregulated in the 'early post-recovery stage' BYIs; pink colored columns, no. of DEGs downregulated in the 'late post-recovery stage' BYIs. (d) Depiction of selected cellular pathways annotated for allene oxide cyclase one, one of seven DEGs upregulated in ‘early post-recovery stage’ BYIs and downregulated in ‘late post-recovery stage’ BYIs. (e1–3) RT-qPCR analyses showing relative gene expression ratios of CsRDR1a, CsRDR1b and CsRDR1c genes in early and late post-recovery stage BYIs and the associated dark green surrounding tissues. H, healthy control; INF, a CGMMV systemically infected cucumber leaf; EB, 'early post-recovery stage' BYIs; LB, 'late post-recovery stage' BYIs; ED, 'early post-recovery stage' dark green surrounding tissues; LD, 'late post-recovery stage' dark green surrounding tissues.