PXD049036

PXD049036 is an original dataset announced via ProteomeXchange.

Title	FACS-Proteomics strategy toward Extracellular Vesicles single-phenotype characterization in biological fluids: insights into the role of Leukocyte-derived EVs in Multiple Sclerosis
Description	The isolation and proteomics characterization of Extracellular Vesicles (EVs) from body fluids represents a stimulating challenge to improve our knowledge of biology, considering the vast heterogeneity in terms of phenotype in vivo. Within a complex and dynamic scenario of EVs isolation and characterization protocols, we have recently demonstrated how the Fluorescence-activated Cell Sorting (FACS) strategy can be adopted to isolate total EVs from untouched body fluids enabling proteomics characterization. Here, we reported for the first time the proteomics characterization of EVs single-phenotype by sorting labelled-recognition events related to Leucocyte-derived EVs (Leuko EVs) by combining lipophilic dye/phalloidin and anti-CD45+ antibodies from peripheral blood and tears of enrolled volunteers. More than 90% of proteins identified in both biological fluids were mainly referred to leukocyte phenotype. This strategy was applied to carry out a label-free proteomics on Leuko EVs from tears of Multiple Sclerosis (MuS) patients, demonstrating as they are enriched with an encoded protein cargo, reflecting the neuroinflammatory condition of MuS (TGFB1 and NFE2L2, upstream regulators activated) and the endothelial cell proliferation together with an increase of vascular networks (AGNPT2 and VEGF, upstream regulators activated) which in turn reflect pro-angiogenic processes predicted as significantly up-regulated downstream effects. Our data showed that FACS-Proteomics strategy for EVs single phenotype characterization could have groundbreaking avenue for biomarker discovery, exalting the clinical value of tears EVs and helping in a better understanding of the EV-mediated processes in vivo.
HostingRepository	PRIDE
AnnounceDate	2025-05-26
AnnouncementXML	Submission_2025-05-25_16:08:20.710.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD049036
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Maria Concetta Cufaro
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; deamidated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2024-01-31 03:34:50	ID requested
⏵ 1	2025-05-25 16:08:21	announced

Cufaro MC, Lanuti P, De Bellis D, Veschi S, Piro A, Fontana A, Di Sebastiano A, Brocco D, Simeone P, Pilato S, Khorooshi RMH, Tomassini V, Rispoli MG, Federici L, Cicalini I, Pieragostino D, Del Boccio P, FACS-Proteomics strategy toward extracellular vesicles single-phenotype characterization in biological fluids: exploring the role of leukocyte-derived EVs in multiple sclerosis. J Transl Med, 23(1):565(2025) [pubmed]

10.1186/s12967-025-06558-4;

10.6019/PXD049036;

submitter keyword: Leukocyte-derived EVs, Multiple Sclerosis, FACS-proteomics, tears

Piero Del Boccio
contact affiliation	Department of Pharmacy, "G. d'Annunzio" University of Chieti-Pescara, 66100 Chieti, Italy
contact email	piero.delboccio@unich.it
lab head
Maria Concetta Cufaro
contact affiliation	University "G. d'Annunzio" of Chieti
contact email	maria.cufaro@unich.it
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2025/05/PXD049036

PRIDE project URI

• PRIDE
  1. PXD049036
     1. Label: PRIDE project
     2. Name: FACS-Proteomics strategy toward Extracellular Vesicles single-phenotype characterization in biological fluids: insights into the role of Leukocyte-derived EVs in Multiple Sclerosis