PXD035257

PXD035257 is an original dataset announced via ProteomeXchange.

Title	Distinct proteomic profile of extracellular vesicles from peritoneal exudates from WT and CD38-deficient mice 2 weeks after pristane injection (lupus disease model)
Description	Extracellular vesicles (EVs) are present in all body fluids. Shed by cells, their molecular make-up reflects that of their cell of origin and/or tissue pathological situation. Our working hypothesis was that analyzing the protein composition, protein abundance, and functional clustering of EVs released by peritoneal exudate cells (PECs) in the pristane experimental lupus model would allow us to identify predictive or diagnostic biomarkers that might discriminate the autoimmunity process in lupus from inflammatory reactions and/or normal physiological processes. Three pools of PE-EVs were isolated from pristane-treated mice (WT versus Cd38-/- mice) by qEV size exclusion column methodology (F5-12, F5-10 and F11-12). Protein extracts were analyzed by LC-MS/MS. Protein identification was performed with ProteinScape, and MASCOT data searching using Swiss-Prot database. For relative quantification the emPAI-based method was used. The functional enrichment analysis was based on the latest publicly available data from multiple annotation and ontology resources that can be automatically accessed through ClueGO + CluePedia apps within Cytoscape environment. STRING app and EnrichR tools were also used. Gene Ontology (GO) and signaling pathways enrichment analyses of F5-10 and F11-12 PE-EVs via ClueGO analyses showed that the proteins clustered in functionally distinct GO terms and signaling pathways. Moreover, the predominance of given GO terms in PE-EVs seemed to vary with the extent of the inflammatory/autoimmune reaction to pristane. Compared with the protein content and protein abundance in PECs (mainly Ly6Chi inflammatory monocytes and neutrophils), PE-EVs showed an enrichment in neutrophil-associated functions, in particular in PE-EVs from Cd38-/- mice.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_08:57:47.332.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD035257
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Jaime Sancho
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	iodoacetamide derivatized residue
Instrument	amaZon Speed ETD

Revision	Datetime	Status	ChangeLog Entry
0	2022-07-11 13:53:22	ID requested
1	2022-10-20 12:05:02	announced
⏵ 2	2023-11-14 08:57:47	announced	2023-11-14: Updated project metadata.

10.6019/PXD035257;

submitter keyword: Mouse

Extracellular Vesicles

Peritoneal Exudate Cells

LC-MSMS

Quantitative Proteomics

Jaime Sancho
contact affiliation	Department of Cellular Biology and Immunology, Lab 201, Instituto de Parasitología y Biomedicina López-Neyra (IPBLN), Consejo Superior de Investigaciones Científicas (CSIC), Spain.
contact email	granada@ipb.csic.es
lab head
Jaime Sancho
contact affiliation	IPBLN-CSIC
contact email	granada@ipb.csic.es
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD035257
     1. Label: PRIDE project
     2. Name: Distinct proteomic profile of extracellular vesicles from peritoneal exudates from WT and CD38-deficient mice 2 weeks after pristane injection (lupus disease model)