Figure 3
Role of transcriptional regulation for protein abundances during nitric oxide stress. (A) Line plots showing changes in transcript (orange) and protein (black) abundances over time in response to NO. The first panel shows the delayed induction of DosR proteins compared to the rapid transcriptional activation. The discordant response observed for FdxA (containing an iron-sulphur cluster) is highlighted with full lines. The second panel shows the delayed induction of proteins from the SUF operon. The third panel shows the delayed decrease in abundance of ribosomal proteins. The fourth panel shows the discordant response observed for proteins containing iron-sulphur clusters. In all panels, fold changes have been normalised so that the maximal and minimal fold change are 1 and minus 1, respectively. (B) Global dynamics of protein up-regulation and down-regulation in response to NO. Heat map shows the correlated dynamics of protein up-regulation and down-regulation with mRNA transcripts for the set of proteins with significant altered abundance 24 hours after exposure to NO. Black coloured cells indicate a significant change of protein abundance compared to time point 0 (log2 fold change >0.5; adjusted P-value < 0.01); white cells denote measurements that did not meet this threshold for differential expression. Right panels show the expression pattern at the mRNA transcript level. In this case, differentially expressed genes were called when log2 fold change >2 and adjusted P-value < 0.01 with significant changes indicated by orange coloured cells.
