PXD036889-1
PXD036889 is an original dataset announced via ProteomeXchange.
Dataset Summary
Title | Wood degradation by Fomitiporia mediterranea M. Fischer: physiologic, metabolomic and proteomic approaches |
Description | Fomitiporia mediterranea (Fmed) is one of the main fungal species found in grapevine wood rot, also called “amadou”, one of the most typical symptoms of grapevine trunk disease Esca. This fungus is functionally classified as a white-rot, able to degrade all wood structure polymers, i.e., hemicelluloses, cellulose, and the most recalcitrant component, lignin. Specific enzymes are secreted by the fungus to degrade those components, namely carbohydrate active enzymes for hemicelluloses and cellulose, which can be highly specific for given polysaccharide, and peroxidases, which enable white-rot to degrade lignin, with specificities relating to lignin composition as well. Furthermore, besides polymers, a highly diverse set of metabolites often associated with antifungal activities is found in wood, this set differing among the various wood species. Wood decayers possess the ability to detoxify these specific extractives and this ability could reflect the adaptation of these fungi to their specific environment. The aim of this study is to better understand the molecular mechanisms used by Fmed to degrade wood structure, and in particular its potential adaptation to grapevine wood. To do so, Fmed was cultivated on sawdust from different origins: grapevine, beech, and spruce. Carbon mineralization rate, mass loss, wood structure polymers contents, targeted metabolites and secreted proteins were measured. We used the well-known white-rot model Trametes versicolor for comparison. Whereas no significant degradation was observed with spruce, a higher mass loss was measured on Fmed grapevine culture compared to beech culture. Moreover, on both substrates, a simultaneous degradation pattern and the degradation of wood extractives were demonstrated, and proteomic analyses identified a relative overproduction of oxidoreductases involved in lignin and extractive degradation on grapevine cultures, and only few differences in carbohydrate active enzymes. These results could explain at least partially the adaptation of Fmed to grapevine wood structural composition compared to other wood species and suggest that other biotic and abiotic factors should be considered to fully understand the potential adaptation of Fmed to its ecological niche. |
HostingRepository | PRIDE |
AnnounceDate | 2022-09-27 |
AnnouncementXML | Submission_2022-09-27_09:16:25.884.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Céline Henry |
SpeciesList | scientific name: Fomitiporia mediterranea; NCBI TaxID: 208960; |
ModificationList | iodoacetamide derivatized residue |
Instrument | Orbitrap Fusion Lumos |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
---|---|---|---|
0 | 2022-09-21 01:07:44 | ID requested | |
⏵ 1 | 2022-09-27 09:16:26 | announced |
Publication List
Dataset with its publication pending |
Keyword List
submitter keyword: Esca, white rot, Fomitiporia mediterranea, grapevine wood, adaptation |
Contact List
Eric Gelhaye | |
---|---|
contact affiliation | University of Lorraine |
contact email | eric.gelhaye@univ-lorraine.fr |
lab head | |
Céline Henry | |
contact affiliation | INRAE |
contact email | celine.henry@inrae.fr |
dataset submitter |
Full Dataset Link List
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PRIDE project URI |
Repository Record List
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