Cov²MS : an automated and quantitative matrix-independent assay for mass spectrometric measurement of SARS-CoV-2 nucleocapsid protein
- Author
- Bart Van Puyvelde (UGent) , Katleen Van Uytfanghe (UGent) , Laurence Van Oudenhove, Ralf Gabriels (UGent) , Tessa Van Royen (UGent) , Arne Matthys (UGent) , Morteza Razavi, Richard Yip, Terry Pearson, Nicolas Drouin, Jan Claereboudt, Dominic Foley, Robert Wardle, Kevin Wyndham, Thomas Hankemeier, Donald Jones, Xavier Saelens (UGent) , Geert Martens, Christophe Stove (UGent) , Dieter Deforce (UGent) , Lennart Martens (UGent) , Johannes P.C. Vissers, N. Leigh Anderson and Maarten Dhaenens (UGent)
- Organization
- Project
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- Ion mobility assisted Data Independent Acquisition of the histone code: opening up peptide-centric data mining.
- Pandemic preparedness: developing a multiplexed mass spectrometry assay to screen for pathogens and the induced immune response.
- A novel, data driven-paradigm for the sensitive identification of phosphopeptides
- Data Independent Acquisition Mass Spectrometry to Mine Human Stem Cell Histone Epigenetics
- A way out of the reagents shortages: an MS-based diagnostic test focused on corona protein detection
- A jump start for metaproteomics informatics
- Designed, broadly protective antibodies directed against influenza B.
- Viral interference with RNA sensing and processing
- Abstract
- The pandemic readiness toolbox needs to be extended, targeting different biomolecules, using orthogonal experimental setups. Here, we build on our Cov-MS effort using LC???MS, adding SISCAPA technology to enrich proteotypic peptides of the SARSCoV-2 nucleocapsid (N) protein from trypsin-digested patient samples. The Cov2MS assay is compatible with most matrices including nasopharyngeal swabs, saliva, and plasma and has increased sensitivity into the attomole range, a 1000-fold improvement compared to direct detection in a matrix. A strong positive correlation was observed with qPCR detection beyond a quantification cycle of 30???31, the level where no live virus can be cultured. The automatable sample preparation and reduced LC dependency allow analysis of up to 500 samples per day per instrument. Importantly, peptide enrichment allows detection of the N protein in pooled samples without sensitivity loss. Easily multiplexed, we detect variants and propose targets for Influenza A and B detection. Thus, the Cov2MS assay can be adapted to test for many different pathogens in pooled samples, providing longitudinal epidemiological monitoring of large numbers of pathogens within a population as an early warning system.
- Keywords
- Analytical Chemistry, SWABS
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Citation
Please use this url to cite or link to this publication: http://hdl.handle.net/1854/LU-01GPE0CVNATSTVHN7CV2NPRT50
- MLA
- Van Puyvelde, Bart, et al. “Cov2MS : An Automated and Quantitative Matrix-Independent Assay for Mass Spectrometric Measurement of SARS-CoV-2 Nucleocapsid Protein.” ANALYTICAL CHEMISTRY, vol. 94, no. 50, American Chemical Society (ACS), 2022, pp. 17379–87, doi:10.1021/acs.analchem.2c01610.
- APA
- Van Puyvelde, B., Van Uytfanghe, K., Van Oudenhove, L., Gabriels, R., Van Royen, T., Matthys, A., … Dhaenens, M. (2022). Cov2MS : an automated and quantitative matrix-independent assay for mass spectrometric measurement of SARS-CoV-2 nucleocapsid protein. ANALYTICAL CHEMISTRY, 94(50), 17379–17387. https://doi.org/10.1021/acs.analchem.2c01610
- Chicago author-date
- Van Puyvelde, Bart, Katleen Van Uytfanghe, Laurence Van Oudenhove, Ralf Gabriels, Tessa Van Royen, Arne Matthys, Morteza Razavi, et al. 2022. “Cov2MS : An Automated and Quantitative Matrix-Independent Assay for Mass Spectrometric Measurement of SARS-CoV-2 Nucleocapsid Protein.” ANALYTICAL CHEMISTRY 94 (50): 17379–87. https://doi.org/10.1021/acs.analchem.2c01610.
- Chicago author-date (all authors)
- Van Puyvelde, Bart, Katleen Van Uytfanghe, Laurence Van Oudenhove, Ralf Gabriels, Tessa Van Royen, Arne Matthys, Morteza Razavi, Richard Yip, Terry Pearson, Nicolas Drouin, Jan Claereboudt, Dominic Foley, Robert Wardle, Kevin Wyndham, Thomas Hankemeier, Donald Jones, Xavier Saelens, Geert Martens, Christophe Stove, Dieter Deforce, Lennart Martens, Johannes P.C. Vissers, N. Leigh Anderson, and Maarten Dhaenens. 2022. “Cov2MS : An Automated and Quantitative Matrix-Independent Assay for Mass Spectrometric Measurement of SARS-CoV-2 Nucleocapsid Protein.” ANALYTICAL CHEMISTRY 94 (50): 17379–17387. doi:10.1021/acs.analchem.2c01610.
- Vancouver
- 1.Van Puyvelde B, Van Uytfanghe K, Van Oudenhove L, Gabriels R, Van Royen T, Matthys A, et al. Cov2MS : an automated and quantitative matrix-independent assay for mass spectrometric measurement of SARS-CoV-2 nucleocapsid protein. ANALYTICAL CHEMISTRY. 2022;94(50):17379–87.
- IEEE
- [1]B. Van Puyvelde et al., “Cov2MS : an automated and quantitative matrix-independent assay for mass spectrometric measurement of SARS-CoV-2 nucleocapsid protein,” ANALYTICAL CHEMISTRY, vol. 94, no. 50, pp. 17379–17387, 2022.
@article{01GPE0CVNATSTVHN7CV2NPRT50,
abstract = {{The pandemic readiness toolbox needs to be extended, targeting different biomolecules, using orthogonal experimental setups. Here, we build on our Cov-MS effort using LC???MS, adding SISCAPA technology to enrich proteotypic peptides of the SARSCoV-2 nucleocapsid (N) protein from trypsin-digested patient samples. The Cov2MS assay is compatible with most matrices including nasopharyngeal swabs, saliva, and plasma and has increased sensitivity into the attomole range, a 1000-fold improvement compared to direct detection in a matrix. A strong positive correlation was observed with qPCR detection beyond a quantification cycle of 30???31, the level where no live virus can be cultured. The automatable sample preparation and reduced LC dependency allow analysis of up to 500 samples per day per instrument. Importantly, peptide enrichment allows detection of the N protein in pooled samples without sensitivity loss. Easily multiplexed, we detect variants and propose targets for Influenza A and B detection. Thus, the Cov2MS assay can be adapted to test for many different pathogens in pooled samples, providing longitudinal epidemiological monitoring of large numbers of pathogens within a population as an early warning system.}},
author = {{Van Puyvelde, Bart and Van Uytfanghe, Katleen and Van Oudenhove, Laurence and Gabriels, Ralf and Van Royen, Tessa and Matthys, Arne and Razavi, Morteza and Yip, Richard and Pearson, Terry and Drouin, Nicolas and Claereboudt, Jan and Foley, Dominic and Wardle, Robert and Wyndham, Kevin and Hankemeier, Thomas and Jones, Donald and Saelens, Xavier and Martens, Geert and Stove, Christophe and Deforce, Dieter and Martens, Lennart and Vissers, Johannes P.C. and Anderson, N. Leigh and Dhaenens, Maarten}},
issn = {{0003-2700}},
journal = {{ANALYTICAL CHEMISTRY}},
keywords = {{Analytical Chemistry,SWABS}},
language = {{eng}},
number = {{50}},
pages = {{17379--17387}},
publisher = {{American Chemical Society (ACS)}},
title = {{Cov²MS : an automated and quantitative matrix-independent assay for mass spectrometric measurement of SARS-CoV-2 nucleocapsid protein}},
url = {{http://doi.org/10.1021/acs.analchem.2c01610}},
volume = {{94}},
year = {{2022}},
}
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