PXD041931

PXD041931 is an original dataset announced via ProteomeXchange.

Title	Exploring Diverse Clinical Presentations in COVID-19 through Circulating Extracellular Vesicle Proteomics Analysis
Description	Extracellular vesicles (EVs) released by virus-infected cells are susceptible to incorporate viral peptides. Here, we hypothesized that the molecular characterization of EVs obtained from COVID-19 patients will reveal novel immunogenic viral peptides. Blood from COVID-19 patients with severe (G1), mild/asymptomatic disease (G2) and controls (G3), were collected during active infection (m0) in early 2020 and eight months (m8) post-infection. Clinical data showed increased inflammation markers in G1. Neutralizing antibodies in non-vaccinated G1 individuals increased at m8, indicating sustained exposure to viral antigens. Proteomic profiling of EVs isolated by three different methods, immunocapture (CD9), ganglioside-capture (Siglec-1) and size-exclusion chromatography (SEC), failed in identifying viral peptides. These results were validated by Western blot against Spike-RBD and EV proteomics of hamsters with induced viral infection. Noticeably, G3 individuals showed dramatic changes in EV-associated protein abundance when comparing m0-m8, likely due to vaccination. Human EV cargo identified proteins with prognostic potential in severe disease.
HostingRepository	PRIDE
AnnounceDate	2024-09-25
AnnouncementXML	Submission_2024-09-25_05:05:11.296.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Joan Josep Bech-Serra
SpeciesList	scientific name: Cricetulus griseus (Chinese hamster) (Cricetulus barabensis griseus); NCBI TaxID: 10029; scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Fusion Lumos; Orbitrap Exploris 480

Revision	Datetime	Status	ChangeLog Entry
0	2023-05-02 10:33:17	ID requested
⏵ 1	2024-09-25 05:05:11	announced

Dataset with its publication pending

submitter keyword: proteomics profiling,COVID-19 patients, clinical data, ganglioside-capture(siglec-1), antibody response, extracellular vesicles, size-exclusion chromatography(SEC), Tandem mass tag(TMT), immunocapture(CD9)

Hernando A.
contact affiliation	ISGlobal, Hospital Clínic - Universitat de Barcelona, Barcelona, Spain
contact email	hernandoa.delportillo@isglobal.org
lab head
Joan Josep Bech-Serra
contact affiliation	Proteomics Unit - Josep Carreras Leukaemia Research Institute
contact email	jbech@carrerasresearch.org
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/2024/09/PXD041931

PRIDE project URI

• PRIDE
  1. PXD041931
     1. Label: PRIDE project
     2. Name: Exploring Diverse Clinical Presentations in COVID-19 through Circulating Extracellular Vesicle Proteomics Analysis