Regulation of the Escherichia coli stationary-phase sigma factor RpoS is complex and occurs at multiple levels in response to different environmental stresses. One protein that reduces RpoS levels is the transcription factor LrhA, a global regulator of flagellar synthesis. Here we clarify the mechanism of this repression and provide insight into the signaling pathways that feed into this regulation. We show that LrhA represses RpoS at the level of translation in a manner that is dependent on the small RNA (sRNA) chaperone Hfq. Although LrhA also represses the transcription of the sRNA RprA, its regulation of RpoS mainly occurs independently of RprA. To better understand the physiological signals affecting this pathway, a transposon mutagenesis screen was carried out to find factors affecting LrhA activity levels. The RcsCDB phosphorelay system, a cell envelope stress-sensing pathway, was found to repress lrhA synthesis. In addition, mutations in the gene encoding the DNA motor protein FtsK induce lrhA synthesis, which may explain why such strains fail to accumulate RpoS in stationary phase.Bacteria such as Escherichia coli respond to environmental changes by mounting coordinated responses, sometimes involving more than one global regulator. One example is the transcription factor LrhA, which represses expression of several other global regulators, including the stationary-phase sigma factor RpoS and the master regulator of flagellar biosynthesis FlhDC (10, 18). It also influences biofilm development and adherence by repressing type 1 fimbrial expression (1, 18). Motility has been shown to be a key aspect of bacterial virulence in plants, and homologs of LrhA, such as HexA in Erwinia carotovora and PecT in Erwinia chrysanthemi, have been shown to play critical roles in the pathogenic response (4,5,12,25). In addition to its effect on motility, HexA represses genes involved in pathogenicity, such as those encoding exoenzymes and factors involved in prodigiosin and antibiotic production (12). In these systems, HexA is also thought to modulate several global regulators, including RpoS, N-(3-oxohexanoyl)-L-homoserine lactone, and the regulatory small RNA (sRNA) RsmB (25).In E. coli, LrhA expression decreases the levels of RpoS, thus preventing the accumulation of the sigma factor and the transcription of hundreds of stationary-phase genes (10). There are multiple factors that affect RpoS expression, and they work at every possible level of control, including transcription, translation, protein stability, and activity (26). Many environmental conditions influence rpoS translation, and most of these require the sRNA chaperone Hfq. It has been suggested that LrhA affects RpoS stability by stimulating the activity of SprE (RssB), the adaptor protein for RpoS degradation (6, 10). This was intriguing, since it was one of only a few factors affecting SprE activity, whose regulation is the sole mechanism for RpoS accumulation upon carbon starvation (24,27,36). Similar models involving LrhA and SprE homologs in E. carotovora ...