Genome-scale reconstruction of the sigma factor network in Escherichia coli: topology and functional states.

ABSTRACT:

Background

At the beginning of the transcription process, the RNA polymerase (RNAP) core enzyme requires a σ-factor to recognize the genomic location at which the process initiates. Although the crucial role of σ-factors has long been appreciated and characterized for many individual promoters, we do not yet have a genome-scale assessment of their function.

Results

Using multiple genome-scale measurements, we elucidated the network of σ-factor and promoter interactions in Escherichia coli. The reconstructed network includes 4,724 σ-factor-specific promoters corresponding to transcription units (TUs), representing an increase of more than 300% over what has been previously reported. The reconstructed network was used to investigate competition between alternative σ-factors (t

SUBMITTER: Cho BK 

PROVIDER: S-EPMC3923258 | biostudies-literature | 2014 Jan

REPOSITORIES: biostudies-literature