Pseudomonas aeruginosa possesses three quorum-sensing (QS) systems which are key in the expression of a large number of genes, including many virulence factors. Most studies of QS in P. aeruginosa have been performed in clinical isolates and have therefore focused on its role in pathogenicity. P. aeruginosa, however, is regarded as a ubiquitous organism capable of colonizing many different environments and also of establishing beneficial associations with plants. In this study we examined the role of the two N-acyl homoserine lactone systems known as RhlI/R and LasI/R in the environmental rice rhizosphere isolate P. aeruginosa PUPa3. Both the Rhl and Las systems are involved in the regulation of plant growth-promoting traits. The environmental P. aeruginosa PUPa3 is pathogenic in two nonmammalian infection models, and only the double las rhl mutants are attenuated for virulence. In fact it was established that the two QS systems are not hierarchically organized and that they are both important for the colonization of the rice rhizosphere. This is an in-depth genetic and molecular study of QS in an environmental P. aeruginosa strain and highlights several differences with QS regulation in the clinical isolate PAO1.Pseudomonas aeruginosa has been intensively studied by the scientific community because it is an opportunistic pathogen able to chronically colonize and infect cystic fibrosis patients (30). An important aspect of this bacterium is its capability to adapt to the host environment through the extensive and complex transcriptional regulation of an arsenal of virulence genes. A key player in this response is the quorum-sensing (QS) cell-cell communication system, which coordinates the behavior of P. aeruginosa communities. In fact, the transcriptional regulation of many virulence genes is controlled by two N-acyl homoserine lactone (AHL)-dependent QS systems called LasI/R and RhlI/R (16, 48).In the LasI/R system, lasI directs the synthesis of N-(3-oxododecanoyl)-homoserine lactone (3-oxo-C12-HSL), which binds and activates the cognate response regulator LasR, resulting in the regulation of target gene expression. In the RhlI/R system, on the other hand, rhlI directs the synthesis of N-(butanoyl)-homoserine lactone (C4-HSL), which then interacts with the cognate RhlR, influencing transcription of target genes. These two QS systems are probably among the most studied in bacteria, and their regulons are fundamental to the pathogenicity of P. aeruginosa (48). Importantly, the two systems are intimately connected, being hierarchically organized with the LasI/R system regulating the transcription of rhlI-rhlR (29). The two QS regulons overlap, and together they constitute approximately 10% of the genes in P. aeruginosa, including factors like elastase, alkaline protease, exotoxin A, rhamnolipids, and pyocyanin, as well as being important for the regulation of biofilm formation (19,46,58). The two systems are themselves controlled by different regulators, allowing QS to respond and be modulated also by an array of...