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Nucleic Acids Research 2005 33(10):3381-3389; doi:10.1093/nar/gki654
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Published online 8 June 2005

© The Author 2005. Published by Oxford University Press. All rights reserved
The online version of this article has been published under an open access model. Users are entitled to use, reproduce, disseminate, or display the open access version of this article for non-commercial purposes provided that: the original authorship is properly and fully attributed; the Journal and Oxford University Press are attributed as the original place of publication with the correct citation details given; if an article is subsequently reproduced or disseminated not in its entirety but only in part or as a derivative work this must be clearly indicated. For commercial re-use, please contact journals.permissions{at}oupjournals.org

Article

Inferring the connectivity of a regulatory network from mRNA quantification in Synechocystis PCC6803

Sylvain Lemeille, Amel Latifi1 and Johannes Geiselmann*

Laboratoire Adaptation et Pathogénie des Micro-Organismes, CNRS UMR5163 Université Joseph Fourier Bâtiment Jean Roget, Faculté Médecine-Pharmacie, Domaine de la Merci 38700 La Tronche, France 1Laboratoire de chimie bactérienne, IBSM-CNRS 31 chemin Joseph Aiguier, 13402 Marseille cedex 20, France

*To whom correspondence should be addressed. Tel: +33 4 76 63 74 96; Fax: +33 4 76 63 74 97; Email: hans.geiselmann{at}ujf-grenoble.fr

Received April 26, 2005. Revised May 24, 2005. Accepted May 24, 2005.

A major task of contemporary biology is to understand and predict the functioning of regulatory networks. We use expression data to deduce the regulation network connecting the sigma factors of Synechocystis PCC6803, the most global regulators in bacteria. Synechocystis contains one group 1 (SigA) and four group 2 (SigB, SigC, SigD and SigE) sigma factors. From the relative abundance of the sig mRNA measured in the wild-type and the four group 2 sigma mutants, we derive a network of the influences of each sigma factor on the transcription of all other sigma factors. Internal or external stimuli acting on only one of the sigma factors will thus indirectly modify the expression of most of the others. From this model, we predict the control points through which the circadian time modulates the expression of the sigma factors. Our results show that the cross regulation between the group 1 and group 2 sigma factors is very important for the adaptation of the bacterium to different environmental and physiological conditions.


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