Genes identified by RNA-Seq as SoxR-dependent in stationary phase^a.

aGenes are organized in decreasing order of SoxR-dependence as determined by RNA-Seq. bRNA for this comparison was obtained from 3-day old WT or ΔsoxR cultures, both of which were blue-pigmented. cRNA for this comparison was obtained from 3-day old WT (blue-pigmented) or 1-day old WT (unpigmented) cultures. dFalse discovery rate adjusted q-values were calculated according to the Benjamini-Hochberg procedure [27]. ePredicted functions of genes were obtained from StrepDB (http://strepdb.Streptomyces.org.uk). fConfirmed SoxR-targets that are directly regulated by SoxR in response to Act production [5], [6]. gThese genes are unlikely to be Act-dependent since they were not differentially expressed between 3-day old versus 1-day old WT samples, and were not considered for further analysis. hSCO1697 is soxR which is constitutively expressed over the course of development, and is not autoregulated [5]. Genes identified by RNA-Seq as SoxR-dependent in stationary phasea.