Figure 11.

Network analysis of light pathway genes regulated in Col-0 but not in phyA-211 upon prolonged exposure to low R/FR. Light pathway genes regulated in the wild type but not in phyA-211 upon prolonged exposure to low R/FR (1 d), extracted from the cluster that emerged in the heat map (Fig. 10B), were utilized to infer gene networks by means of the GeneMANIA server using available genomics and proteomics data. Networks are represented as graphs, in which the nodes correspond to genes and the edges correspond to interactions between them. Nodes colored with gray show significant differential gene expression with respect to the control in our array data (Supplemental Tables S3 and S11; for details, see “Materials and Methods”). PPI, Protein-protein interactions.