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Condition-dependent transcriptome reveals high-level regulatory architecture in Bacillus subtilis

Pierre Nicolas 1 Ulrike Mäder 2, 3 Etienne Dervyn 4 Tatiana Rochat 4 Aurelie Leduc 1 Nathalie Pigeonneau 4 Elena Bidnenko 4 Elodie Marchandier 4 Mark Hoebeke 1 Stephane Aymerich 4 Dorte Becher 2 Paola Bisicchia 5 Eric Botella 5 Olivier Delumeau 4 Geoff Doherty 6 Emma L. Denham 7 Mark J. Fogg 8 Vincent Fromion 1 Anne Goelzer 1 Annette Hansen 5 Elisabeth Härtig 9 Colin R. Harwood 10 Georg Homuth 3 Hanne Jarmer 11 Matthieu Jules 4 Edda Klipp 12 Ludovic Le Chat 4 François Lecointe 4 Peter Lewis 6 Wolfram Liebermeister 12 Anika March 9 Rubens A. T. Mars 7 Priyanka Nannapaneni 3 David Noone 5 Susanne Pohl 10 Bernd Rinn 13 Frank Rügheimer 14 Praveen K. Sappa 3 Franck Samson 1 Marc Schaeffer 2 Benno Schwikowski 14 Leif Steil 3 Jörg Stülke 15 Thomas Wiegert 16 Kevin M. Devine 5 Anthony J. Wilkinson 8 Jan Maarten van Dijl 7 Michael Hecker 2 Uwe Völker 3 Philippe Bessières 1 Philippe Noirot 4, *
Abstract : Bacteria adapt to environmental stimuli by adjusting their transcriptomes in a complex manner, the full potential of which has yet to be established for any individual bacterial species. Here, we report the transcriptomes of Bacillus subtilis exposed to a wide range of environmental and nutritional conditions that the organism might encounter in nature.We comprehensively mapped transcription units (TUs) and grouped 2935 promoters into regulons controlled by various RNA polymerase sigma factors, accounting for ~66% of the observed variance in transcriptional activity. This global classification of promoters and detailed description of TUs revealed that a large proportion of the detected antisense RNAs arose from potentially spurious transcription initiation by alternative sigma factors and from imperfect control of transcription termination.
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https://hal.archives-ouvertes.fr/hal-01000245
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Pierre Nicolas, Ulrike Mäder, Etienne Dervyn, Tatiana Rochat, Aurelie Leduc, et al.. Condition-dependent transcriptome reveals high-level regulatory architecture in Bacillus subtilis. Science, American Association for the Advancement of Science, 2012, 335 (6072), pp.1103-1106. ⟨10.1126/science.1206848⟩. ⟨hal-01000245⟩

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