Genome-wide analysis reveals a RhlA-dependent modulation of flagellar genes in Pseudomonas aeruginosa PAO1

In this study, we describe a transcriptome analysis to compare the gene expression profile of P. aeruginosa PAO1 and its rhlA-knockout derivative, using Affymetrix GeneChipTM P. aeruginosa genome arrays and real-time qPCR analysis. We tested the hypothesis that RhlA-derived biosurfactants affect gene expression, under dynamic growth conditions, at stationary phase of growth. mRNA samples from cell lines were amplified, labeled, and hybridized to the GeneChip® P. aeruginosa Genome Array. The chip array data analysis was performed with TAC software. We analyzed 2 strains in triplicate using the GeneChip® P. aeruginosa Genome Array. Array data was processed by AffymetrixExpression Console and analysed using TAC software