PXD048036

PXD048036 is an original dataset announced via ProteomeXchange.

Title	Proteomic profiles of Schizophyllum commune mycelium, using two different protein extraction methods
Description	Schizophyllum commune is a wood decay fungus known for its antioxidant, anti-tumor, immunological, and antimicrobial properties. Nonetheless, the effects of growth conditions on the activation of metabolic pathways are still poorly understood for this fungus. To this aim, proteomics is one of the most powerful approaches in medicine and biology for the characterization of molecular pathways, protein regulation, and protein-protein interactions of living organisms. A crucial aspect of the proteomics pipeline is the protein extraction method, since it strongly influences the information gained on molecular processes and the understanding of underlying biological mechanisms. In this work, Schizophyllum commune was employed as a model fungus to compare the efficiency of two popular protein extraction methods and to analyze the proteomic profile of mycelium grown in liquid medium. A strain of Schizophyllum commune preserved in the Fungal Research Culture Collection of the University of Pavia (MicUNIPV) was grown on a culture medium composed of malt extract and its protein content was assessed by two distinct extraction methods followed by mass spectrometry analyses. The results show that the protocol based on the combined use of Tris-Cl and Urea led to a significantly higher extraction efficiency, both in terms of the number of proteins identified and the variety of the cellular compartments characterized. Furthermore, functional analysis on identified proteins shows that specific metabolic processes are activated in the growth phase under investigation: catabolism and anabolism of proteins and polysaccharides, pentose phosphate shunt, tricarboxylic acid cycle, and oxidative stress response. Altogether, these results show how to optimize the investigation of the proteomic profiles of Schizophyllum commune, and how this approach would lead to an expansion of its potential industrial applications.
HostingRepository	PRIDE
AnnounceDate	2025-05-06
AnnouncementXML	Submission_2025-05-06_12:27:19.289.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD048036
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Emanuele Ferrari
SpeciesList	scientific name: Schizophyllum commune; NCBI TaxID: 5334;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2023-12-21 01:59:05	ID requested
⏵ 1	2025-05-06 12:27:20	announced

10.6019/PXD048036;

10.3390/jof11020120;

Desiderio A, Goppa L, Santambrogio C, Brocca S, Buratti S, Girometta CE, Sarkar M, Venuti MT, Savino E, Rossi P, Ferrari E, to Enhance Medicinal Mushroom Applications. J Fungi (Basel), 11(2):(2025) [pubmed]

submitter keyword: Protein extraction method

wood decay fungi

mycelium

basidiomycetes

Schizophyllum commune

Emanuele Ferrari
contact affiliation	National Research Council of Italy – Water Research Institute (CNR-IRSA) Molecular Ecology Group (MEG), Verbania, Italy
contact email	emanuele.ferrari@cnr.it
lab head
Emanuele Ferrari
contact affiliation	National Research Council of Italy - Water Research Institute (CNR-IRSA)
contact email	emanuele.ferrari@cnr.it
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD048036
     1. Label: PRIDE project
     2. Name: Proteomic profiles of Schizophyllum commune mycelium, using two different protein extraction methods