PXD025590

PXD025590 is an original dataset announced via ProteomeXchange.

Title	Proteome characterization of BALF extracellular vesicles in Idiopathic Pulmonary Fibrosis: unveiling undercover molecular pathways.
Description	In the longtime challenge of identifying specific, easily-detectable and reliable biomarkers of interstitial lung diseases (ILDs), alternative biofluids, such as bronchoalveolar lavage fluid (BALF), have been extensively studied. In particular, BALF proteomics is gaining momentum and providing interesting new insights into the pathogenesis of ILDs, especially Idiopathic Pulmonary Fibrosis (IPF). Interest in the role of extracellular vesicles (EVs) in the pathogenesis of IPF has also grown. Though few, current studies on EVs in BALF of IPF patients focus mainly on miRNAs. To the best of our knowledge, the present study is therefore the first shotgun proteomic investigation of EVs isolated from BALF of IPF patients. Our main aim was to characterize the proteome of the vesicular component of BALF and to explore its individual impact on the pathogenesis of IPF. To this purpose, ultracentrifugation was chosen as EVs isolation technique and their purification was assessed by TEM, 2DE and LC-MS/MS. Our 2DE data and scatter plots showed considerable differences between the proteome of EVs and that of its supernatant and of whole BALF. Analysis of protein content and protein functions evidenced that EV proteins are predominantly involved in cytoskeleton remodeling, adenosine signaling, adrenergic signaling, C-peptide signaling and lipid metabolism. Our findings may suggest a wider system involvement in the disease pathogenesis and support the importance of pre-fractioning of complex samples, like BALF, in order to let low-abundant proteins-mediated pathways to emerge.
HostingRepository	PRIDE
AnnounceDate	2021-08-06
AnnouncementXML	Submission_2021-08-06_05:16:10.615.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Enxhi Shaba
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Fusion Lumos; LTQ Orbitrap Velos

Revision	Datetime	Status	ChangeLog Entry
0	2021-04-23 06:20:28	ID requested
⏵ 1	2021-08-06 05:16:11	announced

Shaba E, Landi C, Carleo A, Vantaggiato L, Paccagnini E, Gentile M, Bianchi L, Lupetti P, Bargagli E, Prasse A, Bini L, Proteome Characterization of BALF Extracellular Vesicles in Idiopathic Pulmonary Fibrosis: Unveiling Undercover Molecular Pathways. Int J Mol Sci, 22(11):(2021) [pubmed]

submitter keyword: BALF

extracellular vesicles

IPF

fibrosis

shotgun

proteomics

Prof. Luca Bini
contact affiliation	Functional Proteomics Lab, Life Sciences Department, University of Siena, Italy
contact email	luca.bini@unisi.it
lab head
Enxhi Shaba
contact affiliation	University of Siena
contact email	shaba3@student.unisi.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/2021/08/PXD025590

PRIDE project URI

• PRIDE
  1. PXD025590
     1. Label: PRIDE project
     2. Name: Proteome characterization of BALF extracellular vesicles in Idiopathic Pulmonary Fibrosis: unveiling undercover molecular pathways.