PXD041962
PXD041962 is an original dataset announced via ProteomeXchange.
Dataset Summary
Title | Enzymatic machinery of wood-inhabiting fungi that degrade temperate tree species |
Description | Deadwood plays a crucial role in forest ecosystems, but we have limited information about the specific fungal taxa and extracellular lignocellulolytic enzymes that are actively involved in the decomposition process in situ. To investigate this, we studied the fungal metaproteome of twelve deadwood tree species in a replicated, eight-year experiment. Key fungi observed included genera of white-rot fungi (Basidiomycota, e.g. Armillaria, Hypholoma, Mycena, Ischnoderma, Resinicium), brown-rot fungi (Basidiomycota, e.g. Fomitopsis, Antrodia), diverse Ascomycota including xylariacous soft-rot fungi (e.g. Xylaria, Annulohypoxylon, Nemania) and various wood-associated endophytes and saprotrophs (Ascocoryne, Trichoderma, Talaromyces). These fungi used a whole range of extracellular lignocellulolytic enzymes, such as peroxidases, peroxide-producing enzymes, laccases, cellulases, glucosidases, hemicellulases (xylanases) and lytic polysaccharide monooxygenases (LPMOs). Both the fungi and enzymes were tree-specific, with specialists and generalists being distinguished by network analysis. The extracellular enzymatic system was highly redundant, with many enzyme classes of different origins present simultaneously in all decaying logs. Strong correlations were found between peroxide-producing enzymes (oxidases) and peroxidases as well as LPMOs, and between ligninolytic, cellulolytic and hemicellulolytic enzymes. The overall protein abundance of lignocellulolytic enzymes was reduced by up to -30% in gymnosperm logs compared to angiosperm logs, and gymnosperms lacked ascomycetous enzymes, which may have contributed to the lower decomposition of gymnosperm wood. In summary, we have obtained a comprehensive and detailed insight into the enzymatic machinery of wood-inhabiting fungi in several temperate forest tree species, which can help to improve our understanding of the complex ecological processes in forest ecosystems. |
HostingRepository | PRIDE |
AnnounceDate | 2024-10-22 |
AnnouncementXML | Submission_2024-10-22_06:36:57.193.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Nico Jehmlich |
SpeciesList | scientific name: environmental samples |
ModificationList | monohydroxylated residue; iodoacetamide derivatized residue |
Instrument | Q Exactive HF |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
---|---|---|---|
0 | 2023-05-03 19:27:53 | ID requested | |
1 | 2024-04-22 02:47:03 | announced | |
⏵ 2 | 2024-10-22 06:36:57 | announced | 2024-10-22: Updated project metadata. |
Publication List
10.1093/ISMEJO/WRAE050; |
Keyword List
submitter keyword: LPMO, peroxidases, gymnosperms, lignocellulolytic enzymes,Metaproteomics, Basidiomycota, deadwood decomposition, Ascomycota, angiosperms, simultaneous decay, functional redundancy |
Contact List
Nico Jehmlich | |
---|---|
contact affiliation | Helmholtz Centre for Environmental Research GmbH - UFZ Department of Molecular Systems Biology Permoserstraße 15, 04318 Leipzig, Germany |
contact email | nico.jehmlich@ufz.de |
lab head | |
Nico Jehmlich | |
contact affiliation | Helmholtz-Centre for Environmental Research - UFZ |
contact email | nico.jehmlich@ufz.de |
dataset submitter |
Full Dataset Link List
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PRIDE project URI |
Repository Record List
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