Evidence map›Paper›PMID 27434633›Full record

ArticlePloS one2016

Comparative Analysis of Secretome Profiles of Manganese(II)-Oxidizing Ascomycete Fungi.

Carolyn A Zeiner, Samuel O Purvine, Erika M Zink, Ljiljana Paša-Tolić, Dominique L Chaput, Sajeet Haridas, Si Wu, Kurt LaButti, Igor V Grigoriev, Bernard Henrissat and 2 more

Open access · goldAbstract read
In one paragraph

Article in PloS one, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.

0numbers the graph read from it
0cells of the map it votes in
24citing papers in PubMed
11.0field-weighted citation impact, top 2% 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

24 citing papers in PubMed, 66 citations in OpenAlex.

  1. Review
  2. Article
  3. Article
  4. Article
  5. Article
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  7. Article
  8. Variability of Functional Groups of Rhizosphere Fungi of Norway Spruce (International journal of molecular sciences · 2023
    Article
  9. Article
  10. The First Telomere-to-Telomere Chromosome-Level Genome Assembly ofJournal of fungi (Basel, Switzerland) · 2022
    Article
  11. Fungal perylenequinones.Mycological progress · 2022
    Review
  12. Article
  13. Article
  14. Article
  15. Article
  16. Whole Genome Sequence ofFrontiers in microbiology · 2021
    Article
  17. Article
  18. Article
  19. 101Studies in mycology · 2020
    Article
  20. Article
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

12 authors at 8 institutions in 3 countries.

Carolyn A ZeinerSchool of Engineering and Applied Sciences, Harvard University, Cambridge, Massachusetts, United States of America.
Samuel O PurvineEnvironmental Molecular Sciences Laboratory, Pacific Northwest National Laboratory, Richland, Washington, United States of America.
Erika M ZinkBiological Sciences Laboratory, Pacific Northwest National Laboratory, Richland, Washington, United States of America.
Ljiljana Paša-TolićEnvironmental Molecular Sciences Laboratory, Pacific Northwest National Laboratory, Richland, Washington, United States of America.
Dominique L ChaputDepartment of Mineral Sciences, National Museum of Natural History, Smithsonian Institution, Washington, DC, United States of America.
Sajeet HaridasU.S. Department of Energy Joint Genome Institute, Walnut Creek, California, United States of America.
Si WuEnvironmental Molecular Sciences Laboratory, Pacific Northwest National Laboratory, Richland, Washington, United States of America.
Kurt LaButtiU.S. Department of Energy Joint Genome Institute, Walnut Creek, California, United States of America.
Igor V GrigorievU.S. Department of Energy Joint Genome Institute, Walnut Creek, California, United States of America.
Bernard HenrissatArchitecture et Fonction des Macromolécules Biologiques, UMR7257, Centre National de la Recherche Scientifique and Aix-Marseille Université, 13288 Marseille Cedex 9, France.
Cara M SantelliDepartment of Earth Sciences, University of Minnesota, Minneapolis, Minnesota, United States of America.
Colleen M HanselDepartment of Marine Chemistry and Geochemistry, Woods Hole Oceanographic Institution, Woods Hole, Massachusetts, United States of America.
Joint Genome Institute · USPacific Northwest National Laboratory · USArchitecture et Fonction des Macromolécules Biologiques · FREnvironmental Molecular Sciences Laboratory · USHarvard University · USSmithsonian Institution · USUniversity of Minnesota · USWoods Hole Oceanographic Institution · US

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Fungal secretomes contain a wide range of hydrolytic and oxidative enzymes, including cellulases, hemicellulases, pectinases, and lignin-degrading accessory enzymes, that synergistically drive litter decomposition in the environment. While secretome studies of model organisms such as Phanerochaete chrysosporium and Aspergillus species have greatly expanded our knowledge of these enzymes, few have extended secretome characterization to environmental isolates or conducted side-by-side comparisons of diverse species. Thus, the mechanisms of carbon degradation by many ubiquitous soil fungi remain poorly understood. Here we use a combination of LC-MS/MS, genomic, and bioinformatic analyses to characterize and compare the protein composition of the secretomes of four recently isolated, cosmopolitan, Mn(II)-oxidizing Ascomycetes (Alternaria alternata SRC1lrK2f, Stagonospora sp. SRC1lsM3a, Pyrenochaeta sp. DS3sAY3a, and Paraconiothyrium sporulosum AP3s5-JAC2a). We demonstrate that the organisms produce a rich yet functionally similar suite of extracellular enzymes, with species-specific differences in secretome composition arising from unique amino acid sequences rather than overall protein function. Furthermore, we identify not only a wide range of carbohydrate-active enzymes that can directly oxidize recalcitrant carbon, but also an impressive suite of redox-active accessory enzymes that suggests a role for Fenton-based hydroxyl radical formation in indirect, non-specific lignocellulose attack. Our findings highlight the diverse oxidative capacity of these environmental isolates and enhance our understanding of the role of filamentous Ascomycetes in carbon turnover in the environment.

Indexed as

Soil MicrobiologyAscomycotaBiodegradation, EnvironmentalCarbonCations, DivalentCellulasesComputational BiologyGlycoside HydrolasesHydroxyl RadicalLigninManganeseMolecular Sequence AnnotationOxidation-ReductionPolygalacturonaseSpecies SpecificityCarbonCations, DivalentCellulasesGlycoside HydrolaseshemicellulaseHydroxyl RadicalLigninlignocelluloseManganesePolygalacturonase

Identifiers

PMID27434633
PMCPMC4951024
OpenAlexW2490921552

What OpenQuestion holds

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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.