PXD003561

PXD003561 is an original dataset announced via ProteomeXchange.

Title	Identification of Glycoproteins Associated with HIV Latently Infected Cells Using Quantitative Glycoproteomics
Description	HIV infection is not curable due to viral latency. Compelling reports studying proteins such as CD2, PD-1, LAG-3 and TIGIT suggest that there is a distinct profile of surface proteins that can be used for targeting latently infected cells. We have recently reported that glycoproteins were differentially secreted from HIV latently infected ACH-2 cells compared to the parental A3.01 cells. This observation suggests that glyco-phenotype might be different in these two cell lines. To determine the difference, the ACH-2 and A3.01 cell lines were subjected to a glycoproteomic analysis. A total number of 940 unique N-linked glycosite-containing peptides from 515 glycoproteins were identified. Among the glycoproteins, 365 and 104 were annotated as cell surface and membrane-associated proteins, respectively. Label free quantitative LC-MS/MS analysis revealed a change of 236 glycosite-containing peptides from 172 glycoproteins between the two cell lines without reactivation. Bioinformatic analysis suggests that cell adhesion, immune response, glycoprotein metabolic process, cell motion and cell activation were associated with the changed proteins. After reactivation of latency by phorbol myristate acetate (PMA), changes in glycosite-containing peptides were observed in both cell lines. Changes in 49 glycosite-containing peptides from 45 glycoproteins might be due to viral replication. The changed proteins suggest that cell migration, response to wounding and immune response were impaired in reactivated latently infected cells. Our study provides important glycoproteomic data in respect to HIV latently infected cells. Glycoproteomics merits future application using primary cells to discover reveal mechanisms in HIV pathogenesis.
HostingRepository	PRIDE
AnnounceDate	2016-05-23
AnnouncementXML	Submission_2016-05-23_00:56:12.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Weiming Yang
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; deamidated residue; iodoacetamide derivatized residue
Instrument	LTQ Orbitrap Velos

Revision	Datetime	Status	ChangeLog Entry
0	2016-02-02 03:15:28	ID requested
⏵ 1	2016-05-23 00:56:14	announced

Yang W, Jackson B, Zhang H, Identification of glycoproteins associated with HIV latently infected cells using quantitative glycoproteomics. Proteomics, 16(13):1872-80(2016) [pubmed]

curator keyword: Biomedical

submitter keyword: HIV, latency, SPEG, quantitative glycoproteomics

Hui Zhang
contact affiliation	Department of Pathology, Johns Hopkins University School of Medicine, Baltimore, Maryland, USA 21287
contact email	huizhang@jhu.edu
lab head
Weiming Yang
contact affiliation	Johns Hopkins University
contact email	wesley.young@hotmail.com
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD003561
     1. Label: PRIDE project
     2. Name: Identification of Glycoproteins Associated with HIV Latently Infected Cells Using Quantitative Glycoproteomics