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Authors’ contributions PLH conceived the general outline of the experiments. SAF, NSB and PLH participated in planning and executing all molecular constructs and performed the assays. SAF performed the Immunofluorescence. SAF and PLH crafted the manuscript and constructed figures and movies. All authors have read and Molecular motor approved the final manuscript.”
“Background The physiological activities of bacteria growing in biofilms are difficult to divine, because these activities are diverse, change with time as the biofilm develops, and are subject to extreme micro scale spatial heterogeneity [1]. It is also

clear that the metabolism and activities of a particular biofilm will be shaped by the specific chemical and physical environment in which it grows. These realities make it difficult to develop a consensus picture of the physiology of the biofilm state as there is so little overlap in the lists of genes differentially expressed between the planktonic and biofilm states of Pseudomonas aeruginosa prepared by different experimenters [2–7]. However, there are biofilm physiological traits, such as antimicrobial tolerance [8] and reduced growth rate [1], for which there is considerable consensus. These robust phenotypes, with their functional and evolutionary importance, should have discernable biochemical and genetic bases. We sought to understand these phenotypes with an unconventional interpretation of transcriptional profiling studies. Conventional interpretations of transcriptional profiling studies compare two paired data sets that differ in a single controlled variable (e.g., iron concentration, quorum sensing signal molecule addition).

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