Reconstruction and topological characterization of the sigma factor regulatory network of Mycobacterium tuberculosis

Rinki Chauhan, Janani Ravi, Pratik Datta, Tianlong Chen, Dirk Schnappinger, Kevin E. Bassler, Gábor Balázsi, Maria Laura Gennaro

Research output: Contribution to journalArticle

14 Citations (Scopus)

Abstract

Accessory sigma factors, which reprogram RNA polymerase to transcribe specific gene sets, activate bacterial adaptive responses to noxious environments. Here we reconstruct the complete sigma factor regulatory network of the human pathogen Mycobacterium tuberculosis by an integrated approach. The approach combines identification of direct regulatory interactions between M. tuberculosis sigma factors in an E. coli model system, validation of selected links in M. tuberculosis, and extensive literature review. The resulting network comprises 41 direct interactions among all 13 sigma factors. Analysis of network topology reveals (i) a three-tiered hierarchy initiating at master regulators, (ii) high connectivity and (iii) distinct communities containing multiple sigma factors. These topological features are likely associated with multi-layer signal processing and specialized stress responses involving multiple sigma factors. Moreover, the identification of overrepresented network motifs, such as autoregulation and coregulation of sigma and anti-sigma factor pairs, provides structural information that is relevant for studies of network dynamics.

Original languageEnglish (US)
Article number11062
JournalNature communications
Volume7
DOIs
StatePublished - Mar 31 2016

Fingerprint

Sigma Factor
tuberculosis
Mycobacterium tuberculosis
pathogens
accessories
regulators
Accessories
Pathogens
DNA-Directed RNA Polymerases
genes
Escherichia coli
hierarchies
signal processing
Signal processing
Homeostasis
topology
Genes
Topology
interactions

All Science Journal Classification (ASJC) codes

  • Chemistry(all)
  • Biochemistry, Genetics and Molecular Biology(all)
  • Physics and Astronomy(all)

Cite this

Chauhan, Rinki ; Ravi, Janani ; Datta, Pratik ; Chen, Tianlong ; Schnappinger, Dirk ; Bassler, Kevin E. ; Balázsi, Gábor ; Gennaro, Maria Laura. / Reconstruction and topological characterization of the sigma factor regulatory network of Mycobacterium tuberculosis. In: Nature communications. 2016 ; Vol. 7.
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Reconstruction and topological characterization of the sigma factor regulatory network of Mycobacterium tuberculosis. / Chauhan, Rinki; Ravi, Janani; Datta, Pratik; Chen, Tianlong; Schnappinger, Dirk; Bassler, Kevin E.; Balázsi, Gábor; Gennaro, Maria Laura.

In: Nature communications, Vol. 7, 11062, 31.03.2016.

Research output: Contribution to journalArticle

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