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Shotgun proteomics of SARS-CoV-2 infected cells and its application to the optimisation of whole viral particle antigen production for vaccines

Lucia Grenga, Fabrice Gallais, Olivier Pible, Jean-Charles Gaillard, Duarte Gouveia, Hélène Batina, Niza Bazaline, Sylvie Ruat, Karen Culotta, Guylaine Miotello, Stéphanie Debroas, Marie-Anne Roncato, Gérard Steinmetz, Charlotte Foissard, Anne Desplan, Béatrice Alpha-Bazin, Christine Almunia, Fabienne Gas, Laurent Bellanger, Jean Armengaud
doi: https://doi.org/10.1101/2020.04.17.046193
Lucia Grenga
Université Paris Saclay, CEA, INRAE, Département Médicaments et Technologies pour la Santé (DMTS), SPI, 30200 Bagnols-sur-Cèze, France
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Fabrice Gallais
Université Paris Saclay, CEA, INRAE, Département Médicaments et Technologies pour la Santé (DMTS), SPI, 30200 Bagnols-sur-Cèze, France
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Olivier Pible
Université Paris Saclay, CEA, INRAE, Département Médicaments et Technologies pour la Santé (DMTS), SPI, 30200 Bagnols-sur-Cèze, France
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Jean-Charles Gaillard
Université Paris Saclay, CEA, INRAE, Département Médicaments et Technologies pour la Santé (DMTS), SPI, 30200 Bagnols-sur-Cèze, France
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Duarte Gouveia
Université Paris Saclay, CEA, INRAE, Département Médicaments et Technologies pour la Santé (DMTS), SPI, 30200 Bagnols-sur-Cèze, France
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Hélène Batina
Université Paris Saclay, CEA, INRAE, Département Médicaments et Technologies pour la Santé (DMTS), SPI, 30200 Bagnols-sur-Cèze, France
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Niza Bazaline
Université Paris Saclay, CEA, INRAE, Département Médicaments et Technologies pour la Santé (DMTS), SPI, 30200 Bagnols-sur-Cèze, France
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Sylvie Ruat
Université Paris Saclay, CEA, INRAE, Département Médicaments et Technologies pour la Santé (DMTS), SPI, 30200 Bagnols-sur-Cèze, France
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Karen Culotta
Université Paris Saclay, CEA, INRAE, Département Médicaments et Technologies pour la Santé (DMTS), SPI, 30200 Bagnols-sur-Cèze, France
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Guylaine Miotello
Université Paris Saclay, CEA, INRAE, Département Médicaments et Technologies pour la Santé (DMTS), SPI, 30200 Bagnols-sur-Cèze, France
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Stéphanie Debroas
Université Paris Saclay, CEA, INRAE, Département Médicaments et Technologies pour la Santé (DMTS), SPI, 30200 Bagnols-sur-Cèze, France
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Marie-Anne Roncato
Université Paris Saclay, CEA, INRAE, Département Médicaments et Technologies pour la Santé (DMTS), SPI, 30200 Bagnols-sur-Cèze, France
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Gérard Steinmetz
Université Paris Saclay, CEA, INRAE, Département Médicaments et Technologies pour la Santé (DMTS), SPI, 30200 Bagnols-sur-Cèze, France
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Charlotte Foissard
Université Paris Saclay, CEA, INRAE, Département Médicaments et Technologies pour la Santé (DMTS), SPI, 30200 Bagnols-sur-Cèze, France
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Anne Desplan
Université Paris Saclay, CEA, INRAE, Département Médicaments et Technologies pour la Santé (DMTS), SPI, 30200 Bagnols-sur-Cèze, France
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Béatrice Alpha-Bazin
Université Paris Saclay, CEA, INRAE, Département Médicaments et Technologies pour la Santé (DMTS), SPI, 30200 Bagnols-sur-Cèze, France
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Christine Almunia
Université Paris Saclay, CEA, INRAE, Département Médicaments et Technologies pour la Santé (DMTS), SPI, 30200 Bagnols-sur-Cèze, France
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Fabienne Gas
Université Paris Saclay, CEA, INRAE, Département Médicaments et Technologies pour la Santé (DMTS), SPI, 30200 Bagnols-sur-Cèze, France
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Laurent Bellanger
Université Paris Saclay, CEA, INRAE, Département Médicaments et Technologies pour la Santé (DMTS), SPI, 30200 Bagnols-sur-Cèze, France
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Jean Armengaud
Université Paris Saclay, CEA, INRAE, Département Médicaments et Technologies pour la Santé (DMTS), SPI, 30200 Bagnols-sur-Cèze, France
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  • For correspondence: jean.armengaud@cea.fr
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Abstract

Severe acute respiratory syndrome-related coronavirus 2 (SARS-CoV-2) has resulted in a pandemic and continues to spread quickly around the globe. Currently, no effective vaccine is available to prevent COVID-19 and an intense global development activity is in progress. In this context, the different technology platforms face several challenges resulting from the involvement of a new virus still not fully characterised. Finding of the right conditions for virus amplification for the development of vaccines based on inactivated or attenuated whole viral particles is among them. Here, we describe the establishment of a workflow based on shotgun tandem mass spectrometry data to guide the optimisation of the conditions for viral amplification. In parallel, we analysed the dynamic of the host cell proteome following SARS-CoV-2 infection providing a global overview of biological processes modulated by the virus and that could be further explored to identify drug targets to address the pandemic.

Competing Interest Statement

The authors have declared no competing interest.

Footnotes

  • ↵‡ These two co-authors should be considered as co-first authors.

  • https://www.ebi.ac.uk/pride/archive/projects/PXD018594

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. All rights reserved. No reuse allowed without permission.
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Shotgun proteomics of SARS-CoV-2 infected cells and its application to the optimisation of whole viral particle antigen production for vaccines
Lucia Grenga, Fabrice Gallais, Olivier Pible, Jean-Charles Gaillard, Duarte Gouveia, Hélène Batina, Niza Bazaline, Sylvie Ruat, Karen Culotta, Guylaine Miotello, Stéphanie Debroas, Marie-Anne Roncato, Gérard Steinmetz, Charlotte Foissard, Anne Desplan, Béatrice Alpha-Bazin, Christine Almunia, Fabienne Gas, Laurent Bellanger, Jean Armengaud
bioRxiv 2020.04.17.046193; doi: https://doi.org/10.1101/2020.04.17.046193
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Shotgun proteomics of SARS-CoV-2 infected cells and its application to the optimisation of whole viral particle antigen production for vaccines
Lucia Grenga, Fabrice Gallais, Olivier Pible, Jean-Charles Gaillard, Duarte Gouveia, Hélène Batina, Niza Bazaline, Sylvie Ruat, Karen Culotta, Guylaine Miotello, Stéphanie Debroas, Marie-Anne Roncato, Gérard Steinmetz, Charlotte Foissard, Anne Desplan, Béatrice Alpha-Bazin, Christine Almunia, Fabienne Gas, Laurent Bellanger, Jean Armengaud
bioRxiv 2020.04.17.046193; doi: https://doi.org/10.1101/2020.04.17.046193

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