PXD015660
PXD015660 is an original dataset announced via ProteomeXchange.
Dataset Summary
Title | Proteome analysis of HeLa cells knocked down for EXT1 expression |
Description | Exostosin-1 (EXT1) is an ER-resident glycosyltransferase known to polymerize heparan sulfate chain by sequential addition of glucuronic acid and N-acetylglucosamine molecules. This reaction results in heavily glycosylated proteoglycans (PG) at the plasma membrane, which form cell-type specific complexes and play vital roles in cell-cell and cell-pathogens interactions, cell growth, plasticity and proliferation in the local tissue environment. Different evolutionary forces drive the structure and function of protein glycosylation between the inside and outside of the plasma membrane, and an understanding of how the proteome composition of internal cell membranes is regulated remains a fundamental question in biology. In addition, potential interplays between whole cell proteome and membrane composition are completely unknown. We performed EXT1 knockdown in HeLa cells using shRNA, isolated ER microsomes, performed label-free mass spectrometry, and processed the data with byonic 3.5 software to identify glycoproteins. We identified a total of 1080 proteins, 226 with altered expression, 51 phosphoproteins, 25 O-glycosylated and 97 N-glycosylated membrane proteins. We also performed stable isotope labeling amino acids in cell culture comparing proteomes from HeLa knocked down for EXT1 and control cells. We identified a total 5215 proteins, with 3713 proteins having a SILAC ratio and 396 proteins out of total with a significant p-value (p-value <0.05). Our study demonstrate that the glycosyltransferase enzyme contributes to the heterogeneity of intracellular membrane proteins, particularly proteins controlling ER membrane morphologies in response to different cell types and states. |
HostingRepository | PRIDE |
AnnounceDate | 2021-05-11 |
AnnouncementXML | Submission_2021-05-10_22:31:01.146.xml |
DigitalObjectIdentifier | https://dx.doi.org/10.6019/PXD015660 |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Supported dataset by repository |
PrimarySubmitter | Didier Vertommen |
SpeciesList | scientific name: Homo sapiens (Human); NCBI TaxID: 9606; |
ModificationList | Phospho; Oxidation; Label:13C(6); Acetyl; Carbamidomethyl |
Instrument | Orbitrap Fusion Lumos; Q Exactive |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
---|---|---|---|
0 | 2019-10-01 07:57:29 | ID requested | |
1 | 2021-05-10 00:27:21 | announced | |
⏵ 2 | 2021-05-10 22:31:02 | announced | 2021-05-11: Updated project metadata. |
Publication List
10.1126/SCIADV.ABE8349; |
Kerselidou D, Dohai BS, Nelson DR, Daakour S, De Cock N, Hassoun ZAO, Kim DK, Olivet J, El Assal DC, Jaiswal A, Alzahmi A, Saha D, Pain C, Matthijssens F, Lemaitre P, Herfs M, Chapuis J, Ghesquiere B, Vertommen D, Kriechbaumer V, Knoops K, Lopez-Iglesias C, van Zandvoort M, Lambert JC, Hanson J, Desmet C, Thiry M, Lauersen KJ, Vidal M, Van Vlierberghe P, Dequiedt F, Salehi-Ashtiani K, Twizere JC, Alternative glycosylation controls endoplasmic reticulum dynamics and tubular extension in mammalian cells. Sci Adv, 7(19):(2021) [pubmed] |
Keyword List
submitter keyword: glycosylation, microsomes, SILAC,human, Orbitrap |
Contact List
Jean-Claude Twizere | |
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contact affiliation | GIGA-Molecular Biology of Diseases-Viral Interactomes Network, Unniversité de Liège, Belgium |
contact email | jean-claude.twizere@uliege.be |
lab head | |
Didier Vertommen | |
contact affiliation | UCL - de Duve Institute, Brussels Belgium |
contact email | didier.vertommen@uclouvain.be |
dataset submitter |
Full Dataset Link List
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PRIDE project URI |
Repository Record List
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