PXD024767-2

PXD024767 is an original dataset announced via ProteomeXchange.

Title	1. Site-specific O-glycosylation analysis of SARS-CoV-2 spike protein produced in insect and human cells
Description	2. Enveloped viruses hijack not only host translation processes, but also its glycosylation machinery and to a variable extent cover viral surface proteins with tolerogenic host-like structures. SARS-CoV-2 surface protein S presents as a trimer on the viral surface and is covered by a dense shield of N-linked glycans, and a few O-glycosites have been reported. The biosynthetic nature of O-glycosylation is highly variable and is affected by initiating enzyme repertoires in different tissues and cell types, and therefore warrants a more thorough investigation. Here, we used our well-established O-glycoproteomic workflows to map the precise positions of O-linked glycosylation sites on three different entities of protein S – insect cell or human cell-produced ectodomains, or insect cell-derived receptor binding domain (RBD). In total 25 O-glycosites were identified, with similar patterns in the two ectodomains of different cell origin, and a distinct pattern of the monomeric RBD. Strikingly, 16 out of 25 O-glycosites were located within three amino acids from known N-glycosites. However, O-glycosylation was primarily found on peptides that were unoccupied by N-glycans, and otherwise had low overall occupancy. This suggests possible complimentary functions of O-glycans in immune shielding and negligible effects of O-glycosylation on subunit vaccine design for SARS-CoV-2
HostingRepository	PRIDE
AnnounceDate	2021-04-07
AnnouncementXML	Submission_2021-04-07_01:34:38.665.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Sergey Vakhrushev
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606; scientific name: Drosophila melanogaster (Fruit fly); NCBI TaxID: 7227;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos; Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2021-03-16 04:58:00	ID requested
1	2021-04-07 01:11:41	announced
⏵ 2	2021-04-07 01:34:39	announced	2021-04-07: Updated project metadata.

Bagdonaite I, Thompson AJ, Wang X, Søgaard M, Fougeroux C, Frank M, Diedrich JK, Yates JR, Salanti A, Vakhrushev SY, Paulson JC, Wandall HH, Site-Specific O-Glycosylation Analysis of SARS-CoV-2 Spike Protein Produced in Insect and Human Cells. Viruses, 13(4):(2021) [pubmed]

10.3390/V13040551;

ProteomeXchange project tag: Covid-19

submitter keyword: SARS-CoV-2, O-glycosylation, LC-MS, N-glycosylation, ETD

Sergey Vakhrushev
contact affiliation	University of Copenhagen, Department of Cellular and Molecular Medicine, Copenhagen Center for Glycomics
contact email	seva@sund.ku.dk
lab head
Sergey Vakhrushev
contact affiliation	Department of Cellular and Molecular Medicine
contact email	seva@sund.ku.dk
dataset submitter

Dataset FTP location

PRIDE project URI

• PRIDE
  1. PXD024767
     1. Label: PRIDE project
     2. Name: 1. Site-specific O-glycosylation analysis of SARS-CoV-2 spike protein produced in insect and human cells