PXD044913

PXD044913 is an original dataset announced via ProteomeXchange.

Title	Comparison of extracellular vesicle proteome between glaucoma and non-glaucoma trabecular meshwork cells
Description	Extracellular matrix (ECM) materials accumulate in the trabecular meshwork (TM) tissue of patients with glaucoma, which is associated with a decrease in aqueous humor outflow and therefore an increase in intraocular pressure. To explore a potential mechanism for ECM regulation in the TM, we purified extracellular vesicles (EVs) from conditioned media of differentiated TM cells in culture isolated from non-glaucomatous and glaucomatous human donor eyes. EVs were purified using the double cushion ultracentrifugation gradient method. Fractions containing EV markers CD9 and TSG101 were analyzed using nanoparticle tracking analysis to determine their size and concentration. We then determined their proteomic cargo by mass spectrometry and compared protein profiles of EVs between normal and glaucomatous TM cells using PANTHER. Key protein components from EV preparations were validated with Western blotting. Results showed changes in the percentage of ECM proteins associated with EVs from glaucomatous TM cells compared to non-glaucomatous TM cells (5.7% vs 13.1% respectively). Correspondingly, we found that two ECM-related cargo proteins found across all samples, fibronection and EDIL3 were significantly less abundant in glaucomatous EVs (<0.3 fold change across all groups) compared to non-glaucomatous EVs. Overall, these data establish that ECM materials are prominent cargo in EVs from TM cells, and their binding to EVs is diminished in glaucoma
HostingRepository	PRIDE
AnnounceDate	2024-01-26
AnnouncementXML	Submission_2024-01-26_06:13:53.503.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD044913
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Nik Skiba
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; deamidated residue; iodoacetamide derivatized residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2023-08-28 10:55:18	ID requested
⏵ 1	2024-01-26 06:13:54	announced

McDonnell FS, Riddick BJ, Roberts H, Skiba N, Stamer WD, Comparison of the extracellular vesicle proteome between glaucoma and non-glaucoma trabecular meshwork cells. Front Ophthalmol (Lausanne), 3():(2023) [pubmed]

10.6019/PXD044913;

10.3389/fopht.2023.1257737;

submitter keyword: proteomics, ete, extracellular vesicles, trabecular meshwork,human

W. Daniel Stamer
contact affiliation	Duke University, Eyer Centetr
contact email	william.stamer@duke.edu
lab head
Nik Skiba
contact affiliation	Duke University
contact email	skibanik@gmail.com
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/2024/01/PXD044913

PRIDE project URI

• PRIDE
  1. PXD044913
     1. Label: PRIDE project
     2. Name: Comparison of extracellular vesicle proteome between glaucoma and non-glaucoma trabecular meshwork cells