SummaryDuring carbon-starvation-induced entry into stationary phase, Escherichia coli cells exhibit a variety of physiological and morphological changes that ensure survival during periods of prolonged starvation. Induction of 30-50 proteins of mostly unknown function has been shown under these conditions. In an attempt to identify C-starvation-regulated genes we isolated and characterized chromosomal C-starvation-induced csi::/acZ fusions using the x.p/acMu syste-;". One operon fusion (csi2::/acZ) has been studied in detail. csi2::/acZ was induced during transition from exponential to stationary phase and was negatively regulated by cAMP. It was mapped at 59 min on the E. coli chromosome and conferred a pleiotropic phenotype. As demonstrated by two-dimensional gel electrophoresis, cells carrying csi2::/acZ did not synthesize at least 16 proteins present in an isogenic csi2+ strain. Cells containing csi2::/acZ or csi2::Tn 10 did not produce glycogen, did not develop thermotolerance and H20 2 resistance, and did not induce a stationary-phase-specific acidic phosphatase (AppA) as well as another csi fusion (csi5::/acZ). Moreover, they died off much more rapidly than wild-type cells during prolonged starvation. We conclude that csi2::/acZ defines a regulatory gene of central importance for stationary phase E. coli cells. These results and the cloning of the wild-type gene corresponding to csi2 demonstrated that the csi2 locus is allelic with the previously identified regulatory genes katF and appR. The katF sequence indicated that its gene product is a novel sigma factor supposed to regulate expression of catalase HPII and exonuclease III (Mulvey and Loewen, 1989). We suggest that this novel sigma subunit of RNA polymerase defined by csi21 katF/appR is a central early regulator of a large starvation/stationary phase regulon in E. coli and propose 'rpoS' (' us,) as appropriate designations.