TraP is a triply phosphorylated staphylococcal protein that has been hypothesized to be the mediator of a second Staphylococcus aureus quorum-sensing system, "SQS1," that controls expression of the agr system and therefore is essential for the organism's virulence. This hypothesis was based on the loss of agr expression and virulence by a traP mutant of strain 8325-4 and was supported by full complementation of both phenotypic defects by the cloned traP gene in strain NB8 (Y. Gov, I. Borovok, M. Korem, V. K. Singh, R. K. Jayaswal, B. J. Wilkinson, S. M. Rich, and N. Balaban, J. Biol. Chem. 279:14665-14672, 2004), in which the wild-type traP gene was expressed in trans in the 8325-4 traP mutant. We initiated a study of the mechanism by which TraP activates agr and found that the traP mutant strain used for this and other recently published studies has a second mutation, an adventitious stop codon in the middle of agrA, the agr response regulator. The traP mutation, once separated from the agrA defect by outcrossing, had no effect on agr expression or virulence, indicating that the agrA defect accounts fully for the lack of agr expression and for the loss of virulence attributed to the traP mutation. In addition, DNA sequencing showed that the agrA gene in strain NB8 (Gov et al., J. Biol. Chem., 2004), in contrast to that in the agr-defective 8325-4 traP mutant strain, had the wild-type sequence; further, the traP mutation in that strain, when outcrossed, also had no effect on agr expression.Staphylococcal virulence is largely the province of a large set of extracellular proteins that enable the organism to resist host defenses, attach to the tissue matrix, degrade macromolecules, and lyse cellular elements. This constellation of functions is known as the virulon. The production of staphylococcal virulence factors is coordinately controlled by an intricate regulatory network involving several two-component signaling modules and a family of homologous winged-helix transcription factors (1, 3). Central to this regulatory network is the quorumsensing agr two-component signaling module, which triggers expression of the virulon in response to population density (12). We have recently encountered attenuated clinical strains that possess the wild-type agr sequence but do not express it (19), suggesting that there may be genes extrinsic to the agr locus that stringently control its expression. As identification and characterization of such genes would be basic to our understanding of virulence regulation in staphylococci, we noted with great interest reports that the staphylococcal gene traP (not to be confused with the Escherichia coli conjugation gene, traP) is absolutely required for agr expression (2, 5). Accordingly, we have initiated studies to determine the role of this gene in agr activation. TraP is a phosphoprotein with three conserved histidine residues, which must all be phosphorylated for the protein to activate agr (5). TraP phosphorylation is induced by RAP, a secreted form of ribosomal protein L2, and is i...