RNA-Seq of delta-cyaA E.coli mutant at 10 different cAMP concentration

Most research involved in studying the response of gene expression to cAMP have done so under binary states, that is, presence and absence of cAMP in the cell. However, cAMP concentrations in the cell have been reported to vary in a continuous fashion. Systematic studies of global transcription response to continuous changes in intracellular cAMP are largely missing. Here, we study the gene expression kinetics of the E.coli transcriptome in response to an increasing exposure to cAMP. Overall design: We treated delta-cyaA E.coli cells, that cannot make intracellular cAMP, with 10 different concentrations of extracellular cAMP ranging from 0 to 4mM cAMP and performed RNA-seq at each cAMP concentration. We determined the effect of increasing cAMP on the expression of a gene by calculating its foldchange at that cAMP concentration compared to the 0mM delta-cyaA mutant state.