Global network reorganization during dynamic adaptations of Bacillus subtilis metabolism

Joerg Martin Buescher, Wolfram Liebermeister, Matthieu Jules, Markus Uhr, Jan Muntel, Eric Botella, Bernd Hessling, Roelco Jacobus Kleijn, Ludovic Le Chat, François Lecointe, Ulrike Mäder, Pierre Nicolas, Sjouke Piersma, Frank Rügheimer, Dörte Becher, Philippe Bessieres, Elena Bidnenko, Emma L Denham, Etienne Dervyn, Kevin M DevineGeoff Doherty, Samuel Drulhe, Liza Felicori, Mark J Fogg, Anne Goelzer, Annette Hansen, Colin R Harwood, Michael Hecker, Sebastian Hubner, Claus Hultschig, Hanne Jarmer, Edda Klipp, Aurélie Leduc, Peter Lewis, Frank Molina, Philippe Noirot, Sabine Peres, Nathalie Pigeonneau, Susanne Pohl, Simon Rasmussen, Bernd Rinn, Marc Schaffer, Julian Schnidder, Benno Schwikowski, Jan Maarten Van Dijl, Patrick Veiga, Sean Walsh, Anthony J Wilkinson, Jörg Stelling, Stéphane Aymerich, Uwe Sauer

Research output: Contribution to journalArticle

184 Citations (Scopus)

Abstract

Adaptation of cells to environmental changes requires dynamic interactions between metabolic and regulatory networks, but studies typically address only one or a few layers of regulation. For nutritional shifts between two preferred carbon sources of Bacillus subtilis, we combined statistical and model-based data analyses of dynamic transcript, protein, and metabolite abundances and promoter activities. Adaptation to malate was rapid and primarily controlled posttranscriptionally compared with the slow, mainly transcriptionally controlled adaptation to glucose that entailed nearly half of the known transcription regulation network. Interactions across multiple levels of regulation were involved in adaptive changes that could also be achieved by controlling single genes. Our analysis suggests that global trade-offs and evolutionary constraints provide incentives to favor complex control programs.

Original languageEnglish
Pages (from-to)1099-1103
Number of pages5
JournalScience
Volume335
Issue number6072
DOIs
Publication statusPublished - 2 Mar 2012

Keywords

  • Adaptation, Physiological
  • Algorithms
  • Bacillus subtilis/genetics
  • Bacterial Proteins/metabolism
  • Computer Simulation
  • Data Interpretation, Statistical
  • Gene Expression Regulation, Bacterial
  • Gene Regulatory Networks
  • Genome, Bacterial
  • Glucose/metabolism
  • Malates/metabolism
  • Metabolic Networks and Pathways/genetics
  • Metabolome
  • Metabolomics
  • Models, Biological
  • Operon
  • Promoter Regions, Genetic
  • Transcription Factors/metabolism
  • Transcription, Genetic

Cite this

Buescher, J. M., Liebermeister, W., Jules, M., Uhr, M., Muntel, J., Botella, E., Hessling, B., Kleijn, R. J., Le Chat, L., Lecointe, F., Mäder, U., Nicolas, P., Piersma, S., Rügheimer, F., Becher, D., Bessieres, P., Bidnenko, E., Denham, E. L., Dervyn, E., ... Sauer, U. (2012). Global network reorganization during dynamic adaptations of Bacillus subtilis metabolism. Science, 335(6072), 1099-1103. https://doi.org/10.1126/science.1206871