Evidence map›Paper›PMID 29162826›Full record

ArticleNature communications2017

Carrageenan catabolism is encoded by a complex regulon in marine heterotrophic bacteria.

Elizabeth Ficko-Blean, Aurélie Préchoux, François Thomas, Tatiana Rochat, Robert Larocque, Yongtao Zhu, Mark Stam, Sabine Génicot, Murielle Jam, Alexandra Calteau and 15 more

Open access · goldAbstract read
In one paragraph

Article in Nature communications, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 72 papers.

0numbers the graph read from it
0cells of the map it votes in
72citing papers in PubMed
10.0field-weighted citation impact, top 1% 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

72 citing papers in PubMed, 169 citations in OpenAlex.

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  15. Applied and environmental microbiology · 2024
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  16. The catabolic specialization of the marine bacteriumApplied and environmental microbiology · 2024
    Article
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  18. Article
  19. ISME communications · 2024
    Article
  20. Article

12 more citing papers are in PubMed but not listed here.

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

25 authors at 5 institutions in 3 countries.

Elizabeth Ficko-BleanSorbonne Universités, UPMC Univ Paris 06, CNRS, UMR 8227, Integrative Biology of Marine Models, Station Biologique de Roscoff, CS 90074, Roscoff, Bretagne, France.
Aurélie PréchouxSorbonne Universités, UPMC Univ Paris 06, CNRS, UMR 8227, Integrative Biology of Marine Models, Station Biologique de Roscoff, CS 90074, Roscoff, Bretagne, France.
François ThomasSorbonne Universités, UPMC Univ Paris 06, CNRS, UMR 8227, Integrative Biology of Marine Models, Station Biologique de Roscoff, CS 90074, Roscoff, Bretagne, France.ORCID http://orcid.org/0000-0003-1896-0774
Tatiana RochatVIM, INRA, Université Paris-Saclay, 78350, Jouy-en-Josas, France.ORCID http://orcid.org/0000-0002-4533-1220
Robert LarocqueSorbonne Universités, UPMC Univ Paris 06, CNRS, UMR 8227, Integrative Biology of Marine Models, Station Biologique de Roscoff, CS 90074, Roscoff, Bretagne, France.
Yongtao ZhuDepartment of Biological Sciences, University of Wisconsin-Milwaukee, 53201, Milwaukee, WI, USA.ORCID http://orcid.org/0000-0002-3069-6518
Mark StamUMR 8030, CNRS, Université Évry-Val-d'Essonne, CEA, Institut de Génomique - Genoscope, Laboratoire d'Analyses Bioinformatiques pour la Génomique et le Métabolisme, F-91000, Évry, France.
Sabine GénicotSorbonne Universités, UPMC Univ Paris 06, CNRS, UMR 8227, Integrative Biology of Marine Models, Station Biologique de Roscoff, CS 90074, Roscoff, Bretagne, France.
Murielle JamSorbonne Universités, UPMC Univ Paris 06, CNRS, UMR 8227, Integrative Biology of Marine Models, Station Biologique de Roscoff, CS 90074, Roscoff, Bretagne, France.
Alexandra CalteauUMR 8030, CNRS, Université Évry-Val-d'Essonne, CEA, Institut de Génomique - Genoscope, Laboratoire d'Analyses Bioinformatiques pour la Génomique et le Métabolisme, F-91000, Évry, France.
Benjamin ViartUMR 8030, CNRS, Université Évry-Val-d'Essonne, CEA, Institut de Génomique - Genoscope, Laboratoire d'Analyses Bioinformatiques pour la Génomique et le Métabolisme, F-91000, Évry, France.
David RopartzINRA, UR1268 Biopolymers Interactions Assemblies, F-44316, Nantes, France.
David Pérez-PascualVIM, INRA, Université Paris-Saclay, 78350, Jouy-en-Josas, France.
Gaëlle CorrecSorbonne Universités, UPMC Univ Paris 06, CNRS, UMR 8227, Integrative Biology of Marine Models, Station Biologique de Roscoff, CS 90074, Roscoff, Bretagne, France.
Maria Matard-MannSorbonne Universités, UPMC Univ Paris 06, CNRS, UMR 8227, Integrative Biology of Marine Models, Station Biologique de Roscoff, CS 90074, Roscoff, Bretagne, France.
Keith A StubbsSchool of Molecular Sciences, The University of Western Australia, Crawley, WA, 6009, Australia.
Hélène RogniauxINRA, UR1268 Biopolymers Interactions Assemblies, F-44316, Nantes, France.
Alexandra JeudySorbonne Universités, UPMC Univ Paris 06, CNRS, UMR 8227, Integrative Biology of Marine Models, Station Biologique de Roscoff, CS 90074, Roscoff, Bretagne, France.
Tristan BarbeyronSorbonne Universités, UPMC Univ Paris 06, CNRS, UMR 8227, Integrative Biology of Marine Models, Station Biologique de Roscoff, CS 90074, Roscoff, Bretagne, France.
Claudine MédigueUMR 8030, CNRS, Université Évry-Val-d'Essonne, CEA, Institut de Génomique - Genoscope, Laboratoire d'Analyses Bioinformatiques pour la Génomique et le Métabolisme, F-91000, Évry, France.
Mirjam CzjzekSorbonne Universités, UPMC Univ Paris 06, CNRS, UMR 8227, Integrative Biology of Marine Models, Station Biologique de Roscoff, CS 90074, Roscoff, Bretagne, France.
David VallenetUMR 8030, CNRS, Université Évry-Val-d'Essonne, CEA, Institut de Génomique - Genoscope, Laboratoire d'Analyses Bioinformatiques pour la Génomique et le Métabolisme, F-91000, Évry, France.ORCID http://orcid.org/0000-0001-6648-0332
Mark J McBrideDepartment of Biological Sciences, University of Wisconsin-Milwaukee, 53201, Milwaukee, WI, USA.
Eric DuchaudVIM, INRA, Université Paris-Saclay, 78350, Jouy-en-Josas, France.
Gurvan MichelSorbonne Universités, UPMC Univ Paris 06, CNRS, UMR 8227, Integrative Biology of Marine Models, Station Biologique de Roscoff, CS 90074, Roscoff, Bretagne, France. gurvan.michel@sb-roscoff.fr.ORCID http://orcid.org/0000-0002-3009-6205
Centre National de la Recherche Scientifique · FRUniversité Paris-Saclay · FRBiopolymères Interactions Assemblages · FRUniversity of Wisconsin–Milwaukee · USThe University of Western Australia · AU

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Macroalgae contribute substantially to primary production in coastal ecosystems. Their biomass, mainly consisting of polysaccharides, is cycled into the environment by marine heterotrophic bacteria using largely uncharacterized mechanisms. Here we describe the complete catabolic pathway for carrageenans, major cell wall polysaccharides of red macroalgae, in the marine heterotrophic bacterium Zobellia galactanivorans. Carrageenan catabolism relies on a multifaceted carrageenan-induced regulon, including a non-canonical polysaccharide utilization locus (PUL) and genes distal to the PUL, including a susCD-like pair. The carrageenan utilization system is well conserved in marine Bacteroidetes but modified in other phyla of marine heterotrophic bacteria. The core system is completed by additional functions that might be assumed by non-orthologous genes in different species. This complex genetic structure may be the result of multiple evolutionary events including gene duplications and horizontal gene transfers. These results allow for an extension on the definition of bacterial PUL-mediated polysaccharide digestion.

Indexed as

RegulonBacterial ProteinsBacteroidetesCarrageenanCrystallography, X-RayEvolution, MolecularFlavobacteriaceaeGalactosidasesGenes, BacterialMetabolic Networks and PathwaysModels, MolecularMultigene FamilyPhylogenyProtein ConformationRNA, BacterialSequence Analysis, RNABacterial ProteinsCarrageenanGalactosidasesRNA, Bacterial

Identifiers

PMID29162826
PMCPMC5698469
OpenAlexW2769452693

What OpenQuestion holds

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LicenceCC BY
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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.