Characterizing the interplay between multiple levels of organization within bacterial sigma factor regulatory networks.

TitleCharacterizing the interplay between multiple levels of organization within bacterial sigma factor regulatory networks.
Publication TypeJournal Article
Year of Publication2013
AuthorsQiu Y, Nagarajan H, Embree M, Shieu W, Abate E, Juárez K, Cho B-K, Elkins JG, Nevin KP, Barrett CL, Lovley DR, Palsson BO, Zengler K
JournalNat Commun
Volume4
Pagination1755
PubMed Date2013-4-25
ISSN2041-1723
Abstract

Bacteria contain multiple sigma factors, each targeting diverse, but often overlapping sets of promoters, thereby forming a complex network. The layout and deployment of such a sigma factor network directly impacts global transcriptional regulation and ultimately dictates the phenotype. Here we integrate multi-omic data sets to determine the topology, the operational, and functional states of the sigma factor network in Geobacter sulfurreducens, revealing a unique network topology of interacting sigma factors. Analysis of the operational state of the sigma factor network shows a highly modular structure with σ(N) being the major regulator of energy metabolism. Surprisingly, the functional state of the network during the two most divergent growth conditions is nearly static, with sigma factor binding profiles almost invariant to environmental stimuli. This first comprehensive elucidation of the interplay between different levels of the sigma factor network organization is fundamental to characterize transcriptional regulatory mechanisms in bacteria.

Alternate JournalNat Commun
PubMed ID23612296
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