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Modulation of RNA polyadenylation induces strong metabolic rearrangements in Escherichia coli.
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International audience. Bacteria have to respond and to adapt to ever-changing environmental cues by using complex regulatory networks. Post-transcriptional regulation allows rapid adjustments of the metabolism by regulating protein synthesis, and RNA degradation therefore allowing the quality control of transcripts and the recycling of superfluous mRNAs into nucleotides. In the model bacterium Escherichia coli, RNA degradation machinery involves RNases, RNA chaperones and the poly(A) polymerase I (PAP I). PAP I promotes RNA degradation by polyadenylating their 3’-ends (Régnier and Hajnsdorf, 2013). Although the role of PAP I polyadenylation activity on RNA degradation is well described (Hajnsdorf and Kaberdin, 2018), the consequences of PAP I activity on E. coli metabolism have not yet been investigated. In this work, we aimed to assess the role of PAP I activity in the regulation of E. coli metabolism. We have performed large-scale metabolomics analyses of three E. coli strains: the wild type strain, a strain deficient in PAP I activity and a strain overexpressing PAP I. We quantified by mass spectrometry up to 40 metabolites of the central carbon metabolism in the three strains during exponential growth. We show that upon inactivation and overexpression of PAP I activity strong rearrangements of the central carbon metabolism are observed. More particularly, PAP I targets the metabolisms of UDP-sugars and nucleotides and the pentose phosphate pathways. These results are the first evidence of global metabolic regulation by PAP I activity in E. coli. This shows that E. coli cell can use the polyadenylation-mediated RNA degradation pathway to regulate its metabolic activity. This study highlights a clear interaction between the process of RNA degradation and the metabolism in bacteria.
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