Evidence map›Paper›PMID 23339644›Full record

ArticleJournal of proteome research2013

Characterization of host-cell line specific glycosylation profiles of early transmitted/founder HIV-1 gp120 envelope proteins.

Eden P Go, Hua-Xin Liao, S Munir Alam, David Hua, Barton F Haynes, Heather Desaire

Open access · greenAbstract read
In one paragraph

Article in Journal of proteome research, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 78 papers.

0numbers the graph read from it
0cells of the map it votes in
78citing papers in PubMed
6.1field-weighted citation impact, top 3% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

78 citing papers in PubMed, 106 citations in OpenAlex.

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  11. Synthetic Carbohydrate Chemistry and Translational Medicine.The Journal of organic chemistry · 2020
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  14. MASS SPECTROMETRY IN VIROLOGICAL SCIENCES.Mass spectrometry reviews · 2020
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18 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

6 authors at 2 institutions in 1 country.

Eden P GoDepartment of Chemistry, University of Kansas, Lawrence, Kansas, United States.
Hua-Xin Liao
S Munir Alam
David Hua
Barton F Haynes
Heather Desaire
Duke Medical Center · USUniversity of Kansas · US

Funding

Viral Sequencing CoreU19AI067854 · NIAID · DUKE UNIVERSITY · PI BHARDWAJ, NINA · 2006 to 2011
$290.5M
Virus biology scientific research support componentUM1AI100645 · NIAID · DUKE UNIVERSITY · PI MCMICHAEL, ANDREW JAMES · 2012 to 2018
$204.7M
Neutralizing Antibody Induction by Centralized GenesP01AI061734 · NIAID · DUKE UNIVERSITY · PI HAYNES, BARTON F. · 2005 to 2009
$11.7M
Development of a rapid glycosylation profiling system using mass spectrometry datR01GM103547 · NIGMS · UNIVERSITY OF KANSAS LAWRENCE · PI DESAIRE, HEATHER R · 2012 to 2017
$1.8M
Characterization of PTMs on Env to support HIV vaccine developmentR01AI094797 · NIAID · UNIVERSITY OF KANSAS LAWRENCE · PI DESAIRE, HEATHER R · 2012 to 2015
$1.4M
Development of a rapid glycosylation profiling system using mass spec dataR01RR026061 · NCRR · UNIVERSITY OF KANSAS LAWRENCE · PI DESAIRE, HEATHER R · 2009 to 2011
$935k
NCRR NIH HHS R01 RR026061NCRR NIH HHS R01RR026061NIAID NIH HHS 1R01AI094797NIAID NIH HHS P01 AI061734NIAID NIH HHS P01AI61734NIAID NIH HHS R01 AI094797NIAID NIH HHS U19 AI067854NIAID NIH HHS U19AI067854NIAID NIH HHS UM1 AI100645NIAID NIH HHS UM1AI100645NIGMS NIH HHS R01 GM103547
6 · The paper itself

Abstract

Glycosylation plays an essential role in regulating protein function by modulating biological, structural, and therapeutic properties. However, due to its inherent heterogeneity and diversity, the comprehensive analysis of protein glycosylation remains a challenge. As part of our continuing effort in the analysis of glycosylation profiles of recombinant HIV-1 envelope-based immunogens, we evaluated and compared the host-cell specific glycosylation pattern of recombinant HIV-1 surface glycoprotein, gp120, derived from clade C transmitted/founder virus 1086.C expressed in Chinese hamster ovary (CHO) and human embryonic kidney containing T antigen (293T) cell lines. We used an integrated glycopeptide-based mass mapping workflow that includes a partial deglycosylation step described in our previous study with the inclusion of a fragmentation technique, electron transfer dissociation (ETD), to complement collision-induced dissociation. The inclusion of ETD facilitated the analysis by providing additional validation for glycopeptide identification and expanding the identified glycopeptides to include coverage of O-linked glycosylation. The site-specific glycosylation analysis shows that the transmitted/founder 1086.C gp120 expressed in CHO and 293T displayed distinct similarities and differences. For N-linked glycosylation, two sites (N386 and N392) in the V4 region were populated with high mannose glycans in the CHO cell-derived 1086.C gp120, while these sites had a mixture of high mannose and processed glycans in the 293T cell-derived 1086.C gp120. Compositional analysis of O-linked glycans revealed that 293T cell-derived 1086.C gp120 consisted of core 1, 2, and 4 type O-linked glycans, while CHO cell-derived 1086.C exclusively consisted of core 1 type O-linked glycans. Overall, glycosylation site occupancy of the CHO and 293T cell-derived 1086.C gp120 showed a high degree of similarity except for one site at N88 in the C1 region. This site was partially occupied in 293T-gp120 but fully occupied in CHO-gp120. Site-specific glycopeptide analysis of transmitted/founder 1086.C gp120 expressed in CHO cells revealed the presence of phosphorylated glycans, while 293T cell-produced 1086.C gp120 glycans were not phosphorylated. While the influence of phosphorylated glycans on immunogenicity is unclear, distinguishing host-cell specific variations in glycosylation profiles provide insights into the similarity (or difference) in recombinant vaccine products. While these differences had minimal effect on envelope antigenicity, they may be important in considering immunogenicity and functional capacities of recombinant envelope proteins produced in different expression systems.

Indexed as

Amino Acid SequenceAnimalsCHO CellsChromatography, LiquidCricetinaeCricetulusGlycosylationHEK293 CellsHIV Envelope Protein gp120HumansMass SpectrometryMolecular Sequence DataSequence Homology, Amino AcidSurface Plasmon ResonanceHIV Envelope Protein gp120

Identifiers

PMID23339644
PMCPMC3674872
OpenAlexW2069759146

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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.