ArticlePLoS genetics2013
The bacterial response regulator ArcA uses a diverse binding site architecture to regulate carbon oxidation globally.
Article in PLoS genetics, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 89 papers.
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Who cites it
89 citing papers in PubMed, 150 citations in OpenAlex.
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- Implications of gene expression heterogeneity in the interplay between acquired resistance and bacterial metabolism.Scientific reports · 2025Article
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- Escherichia coli growing under antimicrobial gallium nitrate stress reveals new processes of tolerance and toxicity.Scientific reports · 2025Article
- Deciphering the proteome ofComputational and structural biotechnology journal · 2025Article
- The ArcB kinase sensor participates in the phagocyte-mediated stress response inFrontiers in microbiology · 2025Article
- H-NS is a bacterial transposon capture protein.Nature communications · 2024Article
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- Mapping niche-specific two-component system requirements in uropathogenicMicrobiology spectrum · 2024Article
- Iron limitation indirectly reduces theMicrobiology spectrum · 2024Article
- Diversification of signal identity and modus operandi of the Haemophilus influenzae PAS-less ArcB sensor kinase.PloS one · 2024Article
- Small RNA-modulated anaerobic respiration allows bacteria to survive under antibiotic stress conditions.Frontiers in cellular and infection microbiology · 2024Article
- DegS regulates the aerobic metabolism ofFrontiers in cellular and infection microbiology · 2024Article
- Inferred regulons are consistent with regulator binding sequences in E. coli.PLoS computational biology · 2024Article
29 more citing papers are in PubMed but not listed here.
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Authors and funding
5 authors at 1 institution in 1 country.
Funding
Abstract
Despite the importance of maintaining redox homeostasis for cellular viability, how cells control redox balance globally is poorly understood. Here we provide new mechanistic insight into how the balance between reduced and oxidized electron carriers is regulated at the level of gene expression by mapping the regulon of the response regulator ArcA from Escherichia coli, which responds to the quinone/quinol redox couple via its membrane-bound sensor kinase, ArcB. Our genome-wide analysis reveals that ArcA reprograms metabolism under anaerobic conditions such that carbon oxidation pathways that recycle redox carriers via respiration are transcriptionally repressed by ArcA. We propose that this strategy favors use of catabolic pathways that recycle redox carriers via fermentation akin to lactate production in mammalian cells. Unexpectedly, bioinformatic analysis of the sequences bound by ArcA in ChIP-seq revealed that most ArcA binding sites contain additional direct repeat elements beyond the two required for binding an ArcA dimer. DNase I footprinting assays suggest that non-canonical arrangements of cis-regulatory modules dictate both the length and concentration-sensitive occupancy of DNA sites. We propose that this plasticity in ArcA binding site architecture provides both an efficient means of encoding binding sites for ArcA, σ(70)-RNAP and perhaps other transcription factors within the same narrow sequence space and an effective mechanism for global control of carbon metabolism to maintain redox homeostasis.
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