Comparative glycoproteomics study on the surface of SKOV3 versus IOSE80 cell lines

Zhou, Ying and Cai, Xiaoyu and Wu, Linwen and Lin, Nengming (2022) Comparative glycoproteomics study on the surface of SKOV3 versus IOSE80 cell lines. Frontiers in Chemistry, 10. ISSN 2296-2646

[thumbnail of pubmed-zip/versions/1/package-entries/fchem-10-1010642/fchem-10-1010642.pdf] Text
pubmed-zip/versions/1/package-entries/fchem-10-1010642/fchem-10-1010642.pdf - Published Version

Download (2MB)

Abstract

Objective: Site- and structure-specific quantitative N-glycoproteomics study of differential cell-surface N-glycosylation of ovarian cancer SKOV3 cells with the non-cancerous ovarian epithelial IOSE80 cells as the control.

Methods: C18-RPLC-MS/MS (HCD with stepped normalized collision energies) was used to analyze the 1: 1 mixture of labeled intact N-glycopeptides from SKOV3 and IOSE80 cells, and the site- and structure-specific intact N-glycopeptide search engine GPSeeker was used to conduct qualitative and quantitative search on the obtained raw datasets.

Results: With the control of the spectrum-level false discovery rate ≤1%, 13,822 glycopeptide spectral matches coming from 2,918 N-glycoproteins with comprehensive N-glycosite and N-glycan structure information were identified; 3,733 N-glycosites and 3,754 N-glycan sequence structures were confirmed by site-determining and structure-diagnostic fragment ions, respectively. With the control of no less than two observations among the three technical replicates, fold change ≥1.5, and p-value ≤ 0.05, 746 DEPGs in SKOV3 cells relative to IOSE80 cells were quantified, where 421 were upregulated and 325 downregulated.

Conclusion: Differential cell-surface N-glycosylation of ovarian cancer SKOV3 cells were quantitatively analyzed by isotopic labeling and site- and structure-specific N-glycoproteomics. This discovery study provides putative N-glycoprotein biomarker candidates for future validation study using multiple reaction monitoring and biochemical methods.

Item Type: Article
Subjects: European Repository > Chemical Science
Depositing User: Managing Editor
Date Deposited: 04 Feb 2023 04:20
Last Modified: 11 Jun 2024 05:36
URI: http://go7publish.com/id/eprint/1082

Actions (login required)

View Item
View Item