ArticleJournal of bacteriology2011
Redefining Escherichia coli σ(70) promoter elements: -15 motif as a complement of the -10 motif.
Article in Journal of bacteriology, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
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Who cites it
24 citing papers in PubMed, 36 citations in OpenAlex.
- Mechanism ofInternational journal of molecular sciences · 2023Article
- Posttranscriptional Regulation in Response to Different Environmental Stresses in Campylobacter jejuni.Microbiology spectrum · 2022Article
- The Context-Dependent Influence of Promoter Sequence Motifs on Transcription Initiation Kinetics and Regulation.Journal of bacteriology · 2021Review
- Multiplexed characterization of rationally designed promoter architectures deconstructs combinatorial logic for IPTG-inducible systems.Nature communications · 2021Article
- Endogenous Gene Regulation as a Predicted Main Function of Type I-E CRISPR/Cas System inMolecules (Basel, Switzerland) · 2019Article
- Article
- Characterization of a Minimal Type of Promoter Containing the -10 Element and a Guanine at the -14 or -13 Position in Mycobacteria.Journal of bacteriology · 2017Article
- A reporter system coupled with high-throughput sequencing unveils key bacterial transcription and translation determinants.Nature communications · 2017Article
- Mix-and-matching as a promoter recognition mechanism by ECF σ factors.BMC evolutionary biology · 2017Article
- bTSSfinder: a novel tool for the prediction of promoters in cyanobacteria and Escherichia coli.Bioinformatics (Oxford, England) · 2017Article
- Scoring Targets of Transcription in Bacteria Rather than Focusing on Individual Binding Sites.Frontiers in microbiology · 2017Article
- Sequence determinants spanning -35 motif and AT-rich spacer region impacting Ehrlichia chaffeensis Sigma 70-dependent promoter activity of two differentially expressed p28 outer membrane protein genes.DNA research : an international journal for rapid publication of reports on genes and genomes · 2016Article
- Promoter Recognition by Extracytoplasmic Function σ Factors: Analyzing DNA and Protein Interaction Motifs.Journal of bacteriology · 2016Article
- Mutations That Stimulate flhDC Expression in Escherichia coli K-12.Journal of bacteriology · 2015Article
- Distinguishing between productive and abortive promoters using a random forest classifier in Mycoplasma pneumoniae.Nucleic acids research · 2015Article
- Differential role of base pairs on gal promoters strength.Journal of molecular biology · 2015Article
- The TyrR transcription factor regulates the divergent akr-ipdC operons of Enterobacter cloacae UW5.PloS one · 2015Article
- Inferring bacteriophage infection strategies from genome sequence: analysis of bacteriophage 7-11 and related phages.BMC evolutionary biology · 2015Article
- Article
- Mutational analysis of cj0183 Campylobacter jejuni promoter.Current microbiology · 2013Article
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1 author at 1 institution in 1 country.
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No grant is acknowledged in the PubMed record.
Abstract
Classical elements of σ(70) bacterial promoters include the -35 element ((-35)TTGACA(-30)), the -10 element ((-12)TATAAT(-7)), and the extended -10 element ((-15)TG(-14)). Although the -35 element, the extended -10 element, and the upstream-most base in the -10 element ((-12)T) interact with σ(70) in double-stranded DNA (dsDNA) form, the downstream bases in the -10 motif ((-11)ATAAT(-7)) are responsible for σ(70)-single-stranded DNA (ssDNA) interactions. In order to directly reflect this correspondence, an extension of the extended -10 element to a so-called -15 element ((-15)TGnT(-12)) has been recently proposed. I investigated here the sequence specificity of the proposed -15 element and its relationship to other promoter elements. I found a previously undetected significant conservation of (-13)G and a high degeneracy at (-15)T. I therefore defined the -15 element as a degenerate motif, which, together with the conserved stretch of sequence between -15 and -12, allows treating this element analogously to -35 and -10 elements. Furthermore, the strength of the -15 element inversely correlates with the strengths of the -35 element and -10 element, whereas no such complementation between other promoter elements was found. Despite the direct involvement of -15 element in σ(70)-dsDNA interactions, I found a significantly stronger tendency of this element to complement weak -10 elements that are involved in σ(70)-ssDNA interactions. This finding is in contrast to the established view, according to which the -15 element provides a sufficient number of σ(70)-dsDNA interactions, and suggests that the main parameter determining a functional promoter is the overall promoter strength.
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