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Stationary phase reorganisation of the Escherichia coli transcription machinery by Crl protein, a fine-tuner of sigmas activity and levels.
Typas A, Barembruch C, Possling A, Hengge R. Typas A, et al. EMBO J. 2007 Mar 21;26(6):1569-78. doi: 10.1038/sj.emboj.7601629. Epub 2007 Mar 1. EMBO J. 2007. PMID: 17332743 Free PMC article.
Consistently, Crl has a global regulatory effect in stationary phase gene expression exclusively through sigma(S), that is, on sigma(S)-dependent genes only. ...In conclusion, Crl has a key role in reorganising the Escherichia coli transcriptional machinery and glob …
Consistently, Crl has a global regulatory effect in stationary phase gene expression exclusively through sigma(S), that is, on sigma( …
Differential ability of sigma(s) and sigma70 of Escherichia coli to utilize promoters containing half or full UP-element sites.
Typas A, Hengge R. Typas A, et al. Mol Microbiol. 2005 Jan;55(1):250-60. doi: 10.1111/j.1365-2958.2004.04382.x. Mol Microbiol. 2005. PMID: 15612932
In this study, we show that in a subset of promoters, Esigma(s) favours the presence of a distal UP-element half-site, and at the same time is unable to take advantage of a proximal half-site or a full UP-element. ...Finally, experiments using single a …
In this study, we show that in a subset of promoters, Esigma(s) favours the presence of a distal UP-element half-site, and at …
Role of the spacer between the -35 and -10 regions in sigmas promoter selectivity in Escherichia coli.
Typas A, Hengge R. Typas A, et al. Mol Microbiol. 2006 Feb;59(3):1037-51. doi: 10.1111/j.1365-2958.2005.04998.x. Mol Microbiol. 2006. PMID: 16420370
In this study, we suggest that many natural sigma(s)-dependent promoters possess a -35 element, a feature that has been considered as not conserved among sigma(s)-dependent promoters. ...A +/- 2 bp deviation from the optimal spacer length of 17 bp or the comp …
In this study, we suggest that many natural sigma(s)-dependent promoters possess a -35 element, a feature that has been consid …
The -35 sequence location and the Fis-sigma factor interface determine sigmas selectivity of the proP (P2) promoter in Escherichia coli.
Typas A, Stella S, Johnson RC, Hengge R. Typas A, et al. Mol Microbiol. 2007 Feb;63(3):780-96. doi: 10.1111/j.1365-2958.2006.05560.x. Mol Microbiol. 2007. PMID: 17302803
The P2 promoter of proP, encoding a transporter for proline and glycine betaine in Escherichia coli, is a unique paradigm, where master regulators of different growth stages, Fis and sigma(S) (RpoS), collaborate to achieve promoter activation. ...Nevertheless, Fis c …
The P2 promoter of proP, encoding a transporter for proline and glycine betaine in Escherichia coli, is a unique paradigm, whe …
The molecular basis of selective promoter activation by the sigmaS subunit of RNA polymerase.
Typas A, Becker G, Hengge R. Typas A, et al. Mol Microbiol. 2007 Mar;63(5):1296-306. doi: 10.1111/j.1365-2958.2007.05601.x. Mol Microbiol. 2007. PMID: 17302812 Review.
Variable combinations of cis-acting promoter features and trans-acting protein factors determine whether a promoter is recognized by RNAP containing sigmaS or sigma70, or by both holoenzymes. ...Finally, these topics are discussed in the context of sigma factor evolution a …
Variable combinations of cis-acting promoter features and trans-acting protein factors determine whether a promoter is recognized by …
The sigmaS subunit of RNA polymerase as a signal integrator and network master regulator in the general stress response in Escherichia coli.
Klauck E, Typas A, Hengge R. Klauck E, et al. Among authors: typas a. Sci Prog. 2007;90(Pt 2-3):103-27. doi: 10.3184/003685007X215922. Sci Prog. 2007. PMID: 17725229 Review.
The sigmaS (RpoS) subunit of RNA polymerase in Escherichia coli is a key master regulator which allows this bacterial model organism and important pathogen to adapt to and survive environmentally rough times. ...With sigmaS being a central and multiple signal integr …
The sigmaS (RpoS) subunit of RNA polymerase in Escherichia coli is a key master regulator which allows this bacterial model organism …
Escherichia coli σ⁷⁰ senses sequence and conformation of the promoter spacer region.
Singh SS, Typas A, Hengge R, Grainger DC. Singh SS, et al. Among authors: typas a. Nucleic Acids Res. 2011 Jul;39(12):5109-18. doi: 10.1093/nar/gkr080. Epub 2011 Mar 11. Nucleic Acids Res. 2011. PMID: 21398630 Free PMC article.
Here, we use a combination of bioinformatics, genetics and biochemistry to show that σ(70) can sense the sequence and conformation of the promoter spacer region. ...Mutation of σ(70) residue R451, which is highly conserved, results in reduced growth rate, consistent with …
Here, we use a combination of bioinformatics, genetics and biochemistry to show that σ(70) can sense the sequence and conformation of …
Outer membrane lipoprotein NlpI scaffolds peptidoglycan hydrolases within multi-enzyme complexes in Escherichia coli.
Banzhaf M, Yau HC, Verheul J, Lodge A, Kritikos G, Mateus A, Cordier B, Hov AK, Stein F, Wartel M, Pazos M, Solovyova AS, Breukink E, van Teeffelen S, Savitski MM, den Blaauwen T, Typas A, Vollmer W. Banzhaf M, et al. Among authors: typas a. EMBO J. 2020 Mar 2;39(5):e102246. doi: 10.15252/embj.2019102246. Epub 2020 Feb 3. EMBO J. 2020. PMID: 32009249 Free PMC article.
A tool named Iris for versatile high-throughput phenotyping in microorganisms.
Kritikos G, Banzhaf M, Herrera-Dominguez L, Koumoutsi A, Wartel M, Zietek M, Typas A. Kritikos G, et al. Among authors: typas a. Nat Microbiol. 2017 Feb 17;2:17014. doi: 10.1038/nmicrobiol.2017.14. Nat Microbiol. 2017. PMID: 28211844 Free PMC article.
Yet, until now, all efforts to quantify microbial macroscopic phenotypes have been restricted to monitoring growth in a small number of model microorganisms. ...We thereby recapitulated existing knowledge but also identified a plethora of additional genes and pathwa …
Yet, until now, all efforts to quantify microbial macroscopic phenotypes have been restricted to monitoring growth in a small number …
Phenotype inference in an Escherichia coli strain panel.
Galardini M, Koumoutsi A, Herrera-Dominguez L, Cordero Varela JA, Telzerow A, Wagih O, Wartel M, Clermont O, Denamur E, Typas A, Beltrao P. Galardini M, et al. Among authors: typas a. Elife. 2017 Dec 27;6:e31035. doi: 10.7554/eLife.31035. Elife. 2017. PMID: 29280730 Free PMC article.
Understanding how genetic variation contributes to phenotypic differences is a fundamental question in biology. Combining high-throughput gene function assays with mechanistic models of the impact of genetic variants is a promising alternative to genome-wide associa …
Understanding how genetic variation contributes to phenotypic differences is a fundamental question in biology. Combining high-throug …
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