Article ID | Journal | Published Year | Pages | File Type |
---|---|---|---|---|
2040311 | Cell Reports | 2015 | 11 Pages |
•Genome-wide reconstruction of OxyR, SoxR, and SoxS regulons in E. coli•68 genes in 51 TUs belong to these regulons, and 48 genes are directly regulated•Regulatory roles include direct activation of amino acid biosynthesis•Roles also include cell wall synthesis and divalent metal ion transport
SummaryThree transcription factors (TFs), OxyR, SoxR, and SoxS, play a critical role in transcriptional regulation of the defense system for oxidative stress in bacteria. However, their full genome-wide regulatory potential is unknown. Here, we perform a genome-scale reconstruction of the OxyR, SoxR, and SoxS regulons in Escherichia coli K-12 MG1655. Integrative data analysis reveals that a total of 68 genes in 51 transcription units (TUs) belong to these regulons. Among them, 48 genes showed more than 2-fold changes in expression level under single-TF-knockout conditions. This reconstruction expands the genome-wide roles of these factors to include direct activation of genes related to amino acid biosynthesis (methionine and aromatic amino acids), cell wall synthesis (lipid A biosynthesis and peptidoglycan growth), and divalent metal ion transport (Mn2+, Zn2+, and Mg2+). Investigating the co-regulation of these genes with other stress-response TFs reveals that they are independently regulated by stress-specific TFs.
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