Evidence map›Paper›PMID 25795774›Full record

ArticleThe Journal of biological chemistry2015

Unraveling the specific regulation of the central pathway for anaerobic degradation of 3-methylbenzoate.

Javier F Juárez, Huixiang Liu, María T Zamarro, Stephen McMahon, Huanting Liu, James H Naismith, Christian Eberlein, Matthias Boll, Manuel Carmona, Eduardo Díaz

Open access · hybridAbstract read
In one paragraph

Article in The Journal of biological chemistry, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.

0numbers the graph read from it
0cells of the map it votes in
4citing papers in PubMed
1.2field-weighted citation impact, top 21% 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

4 citing papers in PubMed, 14 citations in OpenAlex.

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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

10 authors at 3 institutions in 3 countries.

Javier F JuárezFrom the Department of Environmental Biology, Centro de Investigaciones Biológicas-Consejo Superior de Investigaciones Científicas, Ramiro de Maeztu 9, 28040 Madrid, Spain.
Huixiang Liuthe Biomedical Sciences Research Complex, University of St. Andrews, North Haugh, St. Andrews KY16 9ST, Scotland, United Kingdom, and.
María T ZamarroFrom the Department of Environmental Biology, Centro de Investigaciones Biológicas-Consejo Superior de Investigaciones Científicas, Ramiro de Maeztu 9, 28040 Madrid, Spain.
Stephen McMahonthe Biomedical Sciences Research Complex, University of St. Andrews, North Haugh, St. Andrews KY16 9ST, Scotland, United Kingdom, and.
Huanting Liuthe Biomedical Sciences Research Complex, University of St. Andrews, North Haugh, St. Andrews KY16 9ST, Scotland, United Kingdom, and.
James H Naismiththe Biomedical Sciences Research Complex, University of St. Andrews, North Haugh, St. Andrews KY16 9ST, Scotland, United Kingdom, and.
Christian Eberleinthe Institute for Biology II, University of Freiburg, 79104 Freiburg, Germany.
Matthias Bollthe Institute for Biology II, University of Freiburg, 79104 Freiburg, Germany.
Manuel CarmonaFrom the Department of Environmental Biology, Centro de Investigaciones Biológicas-Consejo Superior de Investigaciones Científicas, Ramiro de Maeztu 9, 28040 Madrid, Spain.
Eduardo DíazFrom the Department of Environmental Biology, Centro de Investigaciones Biológicas-Consejo Superior de Investigaciones Científicas, Ramiro de Maeztu 9, 28040 Madrid, Spain, ediaz@cib.csic.es.
Consejo Superior de Investigaciones Científicas · ESUniversity of St Andrews · GBUniversity of Freiburg · DE

Funding

Biotechnology and Biological Sciences Research CouncilWellcome Trust
6 · The paper itself

Abstract

The mbd cluster encodes the anaerobic degradation of 3-methylbenzoate in the β-proteobacterium Azoarcus sp. CIB. The specific transcriptional regulation circuit that controls the expression of the mbd genes was investigated. The PO, PB 1, and P3 R promoters responsible for the expression of the mbd genes, their cognate MbdR transcriptional repressor, as well as the MbdR operator regions (ATACN10GTAT) have been characterized. The three-dimensional structure of MbdR has been solved revealing a conformation similar to that of other TetR family transcriptional regulators. The first intermediate of the catabolic pathway, i.e. 3-methylbenzoyl-CoA, was shown to act as the inducer molecule. An additional MbdR-dependent promoter, PA, which contributes to the expression of the CoA ligase that activates 3-methylbenzoate to 3-methylbenzoyl-CoA, was shown to be necessary for an efficient induction of the mbd genes. Our results suggest that the mbd cluster recruited a regulatory system based on the MbdR regulator and its target promoters to evolve a distinct central catabolic pathway that is only expressed for the anaerobic degradation of aromatic compounds that generate 3-methylbenzoyl-CoA as the central metabolite. All these results highlight the importance of the regulatory systems in the evolution and adaptation of bacteria to the anaerobic degradation of aromatic compounds.

Indexed as

Gene Expression Regulation, BacterialAmino Acid SequenceAnaerobiosisAzoarcusBacterial ProteinsBenzoatesbeta-GalactosidaseCrystallography, X-RayDeoxyribonuclease IDNAGene Expression ProfilingLac OperonModels, MolecularMolecular Sequence DataMultigene FamilyMutationBacterial ProteinsBenzoatesbeta-GalactosidaseDeoxyribonuclease IDNAmethyl benzoateOligonucleotidesRepressor Proteins3-MethylbenzoateAnaerobic DegradationAzoarcusBacterial TranscriptionGene ExpressionMicrobiologyProtein-DNA InteractionTranscription Regulation

Identifiers

PMID25795774
PMCPMC4424350
OpenAlexW2086373888

What OpenQuestion holds

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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.