PXD036889

PXD036889 is an original dataset announced via ProteomeXchange.

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

Revision	Datetime	Status	ChangeLog Entry
0	2022-09-21 01:07:44	ID requested
⏵ 1	2022-09-27 09:16:26	announced

Dataset with its publication pending

submitter keyword: Esca, white rot, Fomitiporia mediterranea, grapevine wood, adaptation

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

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PRIDE project URI

• PRIDE
  1. PXD036889
     1. Label: PRIDE project
     2. Name: Wood degradation by Fomitiporia mediterranea M. Fischer: physiologic, metabolomic and proteomic approaches