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Staphylococcus aureus Transcriptome Architecture: From Laboratory to Infection-Mimicking Conditions

Maeder, U., Nicolas, P., Depke, M., Pane-Farre, J., Debarbouille, M., van der Kooi-Pol, M. M., Guerin, C., Derozier, S., Hiron, A., Jarmer, H., Leduc, A., Michalik, S., Reilman, E., Schaffer, M., Schmidt, F., Bessieres, P., Noirot, P., Hecker, M., Msadek, T., Voelker, U. & van Dijl, J. M., Apr-2016, In : PLoS genetics. 12, 4, 32 p., e1005962.

Research output: Contribution to journalArticleAcademicpeer-review

  • Ulrike Maeder
  • Pierre Nicolas
  • Maren Depke
  • Jan Pane-Farre
  • Michel Debarbouille
  • Magdalena M. van der Kooi-Pol
  • Cyprien Guerin
  • Sandra Derozier
  • Aurelia Hiron
  • Hanne Jarmer
  • Aurelie Leduc
  • Stephan Michalik
  • Ewoud Reilman
  • Marc Schaffer
  • Frank Schmidt
  • Philippe Bessieres
  • Philippe Noirot
  • Michael Hecker
  • Tarek Msadek
  • Uwe Voelker
  • Jan Maarten van Dijl

Staphylococcus aureus is a major pathogen that colonizes about 20% of the human population. Intriguingly, this Gram-positive bacterium can survive and thrive under a wide range of different conditions, both inside and outside the human body. Here, we investigated the transcriptional adaptation of S. aureus HG001, a derivative of strain NCTC 8325, across experimental conditions ranging from optimal growth in vitro to intracellular growth in host cells. These data establish an extensive repertoire of transcription units and non-coding RNAs, a classification of 1412 promoters according to their dependence on the RNA polymerase sigma factors SigA or SigB, and allow identification of new potential targets for several known transcription factors. In particular, this study revealed a relatively low abundance of antisense RNAs in S. aureus, where they overlap only 6% of the coding genes, and only 19 antisense RNAs not co-transcribed with other genes were found. Promoter analysis and comparison with Bacillus subtilis links the small number of antisense RNAs to a less profound impact of alternative sigma factors in S. aureus. Furthermore, we revealed that Rho-dependent transcription termination suppresses pervasive antisense transcription, presumably originating from abundant spurious transcription initiation in this A + T-rich genome, which would otherwise affect expression of the overlapped genes. In summary, our study provides genome-wide information on transcriptional regulation and non-coding RNAs in S. aureus as well as new insights into the biological function of Rho and the implications of spurious transcription in bacteria.

Original languageEnglish
Article numbere1005962
Number of pages32
JournalPLoS genetics
Volume12
Issue number4
Publication statusPublished - Apr-2016

    Keywords

  • VIRULENCE GENE-EXPRESSION, GRAM-POSITIVE BACTERIA, TERMINATION FACTOR-RHO, SIGMA-FACTOR-B, BACILLUS-SUBTILIS, ESCHERICHIA-COLI, MODULATES VIRULENCE, EPITHELIAL-CELLS, IMMUNE EVASION, SMALL RNAS

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