Evidence map›Paper›PMID 27915292›Full record

ArticleNucleic acids research2016

The dual role of DksA protein in the regulation of Escherichia coli pArgX promoter.

Robert Łyżeń, Amarnath Maitra, Klaudia Milewska, Maja Kochanowska-Łyżeń, V James Hernandez, Agnieszka Szalewska-Pałasz

Abstract read
In one paragraph

Article in Nucleic acids research, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.

0numbers the graph read from it
0cells of the map it votes in
16citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

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Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

16 citing papers in PubMed.

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  11. Phage S144, A New Polyvalent Phage InfectingInternational journal of molecular sciences · 2020
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  12. Review
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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

6 authors.

Robert ŁyżeńDepartment of Molecular Biology, University of Gdańsk, Wita Stwosza 59, 80-308 Gdańsk, Poland.
Amarnath MaitraState University of New York at Buffalo, Buffalo, NY 14214, USA.
Klaudia MilewskaDepartment of Molecular Biology, University of Gdańsk, Wita Stwosza 59, 80-308 Gdańsk, Poland.
Maja Kochanowska-ŁyżeńDepartment of Molecular Biology, University of Gdańsk, Wita Stwosza 59, 80-308 Gdańsk, Poland.
V James HernandezDepartment of Cell Biology, University of Texas Southwestern Medical Center, 5335 Harry Hines Blvd. Dallas, TX 75390, USA.
Agnieszka Szalewska-PałaszDepartment of Molecular Biology, University of Gdańsk, Wita Stwosza 59, 80-308 Gdańsk, Poland Agnieszka.Szalewska@biol.ug.edu.pl.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Gene expression regulation by the stringent response effector, ppGpp, is facilitated by DksA protein; however DksA and ppGpp can play independent roles in transcription. In Escherichia coli, the pArgX promoter which initiates the transcription of four tRNA genes was shown to be inhibited by ppGpp. Our studies on the role of DksA in pArgX regulation revealed that it can stimulate transcription by increasing the binding of RNA polymerase to the promoter and the productive transcription complex formation. However, when DksA is present together with ppGpp a severe down-regulation of promoter activity is observed. Our results indicate that DksA facilitates the effects of ppGpp to drive formation of inactive dead-end complexes formed by RNA polymerase at the ArgX promoter. In vivo, ppGpp-mediated regulation of pArgX transcription is dependent on DksA activity. The potential mechanisms of opposing pArgX regulation by ppGpp and DksA are discussed. pArgX is the first reported example of the promoter stimulated by DksA and inhibited by ppGpp in vitro when an overall inhibition occurs in the presence of both regulators. A dual role is thus proposed for DksA in the regulation of the pArgX promoter activity.

Indexed as

Gene Expression Regulation, BacterialPromoter Regions, GeneticDNA, BacterialDNA-Directed RNA PolymerasesEscherichia coliEscherichia coli ProteinsProtein BindingTranscription, GeneticTranscription Initiation, GeneticdksA protein, E coliDNA, BacterialDNA-Directed RNA PolymerasesEscherichia coli Proteins

Identifiers

PMID27915292
PMCPMC5137449

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.