FIG 1.

σ^H upregulates genes encoding Fe-S cluster-containing enzymes. (A and D) The ChIP-chip peaks found upstream of ilvD and of lipA. The log₂ ratio of the Cy5 signal (ChIP-enriched DNA) divided by Cy3 signal (total genomic DNA) of each probe is plotted against the chromosomal location of the probes (x axis). Genes are indicated in the boxed arrows below the graphs. The image was created using MochiView, version 1.45 (36). Representative data are shown. The highest enrichment ratio (Cy5/Cy3) is indicated in each plot. (B and E) qRT-PCR analysis of transcript levels of ilvD and of lipA and lipB in the wild type (WT) and the sigH and rshA mutants grown in nutrient-rich A medium before (white) and after (black) heat shock treatment at 45°C for 15 min. The transcript levels before heat shock in the wild type were taken as 1. Mean values obtained from at least three independent cultivations are shown with standard deviations. (C and F) Nucleic acid sequences of the upstream regions of ilvD and of lipA. The transcriptional start points (TSPs) (+1) and the −35 and −10 regions of the σ^A- and σ^H-dependent promoters are indicated in boldface. The TSP from the σ^A-dependent promoter of ilvD has been previously determined (45). The terminal and start codons of cgR_1345 and ilvD (C) and those of lipB and lipA (F) are indicated with asterisks and arrows, respectively.