Evidence map›Paper›PMID 25953406›Full record

ArticleBMC genetics2015

Genetic analysis, structural modeling, and direct coupling analysis suggest a mechanism for phosphate signaling in Escherichia coli.

Stewart G Gardner, Justin B Miller, Tanner Dean, Tanner Robinson, McCall Erickson, Perry G Ridge, William R McCleary

Open access · diamondAbstract read
In one paragraph

Article in BMC genetics, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.

0numbers the graph read from it
0cells of the map it votes in
18citing papers in PubMed
6.2field-weighted citation impact, top 3% of its field
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

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

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

18 citing papers in PubMed, 57 citations in OpenAlex.

  1. Article
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  7. Stress-Responsive Periplasmic Chaperones in Bacteria.Frontiers in molecular biosciences · 2021
    Review
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  9. Control of theEcoSal Plus · 2019
    Review
  10. Review
  11. Article
  12. Article
  13. Article
  14. Review
  15. Article
  16. Article
  17. Article
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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

7 authors at 1 institution in 1 country.

Stewart G Gardner
Justin B Miller
Tanner Dean
Tanner Robinson
McCall Erickson
Perry G Ridge
William R McCleary
Brigham Young University · US

Funding

Molecular Mechanisms of Phosphate Signaling in E. coliR15GM096222 · NIGMS · BRIGHAM YOUNG UNIVERSITY · PI MCCLEARY, WILLIAM R · 2011 to 2011
$287k
NIGMS NIH HHS R15GM96222
6 · The paper itself

Abstract

backgroundProper phosphate signaling is essential for robust growth of Escherichia coli and many other bacteria. The phosphate signal is mediated by a classic two component signal system composed of PhoR and PhoB. The PhoR histidine kinase is responsible for phosphorylating/dephosphorylating the response regulator, PhoB, which controls the expression of genes that aid growth in low phosphate conditions. The mechanism by which PhoR receives a signal of environmental phosphate levels has remained elusive. A transporter complex composed of the PstS, PstC, PstA, and PstB proteins as well as a negative regulator, PhoU, have been implicated in signaling environmental phosphate to PhoR.

resultsThis work confirms that PhoU and the PstSCAB complex are necessary for proper signaling of high environmental phosphate. Also, we identify residues important in PhoU/PhoR interaction with genetic analysis. Using protein modeling and docking methods, we show an interaction model that points to a potential mechanism for PhoU mediated signaling to PhoR to modify its activity. This model is tested with direct coupling analysis.

conclusionsThese bioinformatics tools, in combination with genetic and biochemical analysis, help to identify and test a model for phosphate signaling and may be applicable to several other systems.

Indexed as

Signal TransductionATP-Binding Cassette TransportersBacterial ProteinsEscherichia coliEscherichia coli ProteinsMembrane Transport ProteinsModels, MolecularPhosphatesTranscription FactorsATP-Binding Cassette TransportersBacterial ProteinsEscherichia coli ProteinsMembrane Transport ProteinsPhoR protein, BacteriaPhosphatesphoU protein, E coliTranscription Factors

Identifiers

PMID25953406
PMCPMC4423584
OpenAlexW1537164897

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

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.