Proteotyping SARS-CoV-2 Virus from Nasopharyngeal Swabs: A Proof-of-Concept Focused on a 3 Min Mass Spectrometry Window
| Autor: | Jean-Philippe Lavigne, Duarte Gouveia, Guylaine Miotello, Jean Charles Gaillard, Lucia Grenga, Albert Sotto, Fabrice Gallais, Laurent Bellanger, Olivier Pible, Jean Armengaud, Stéphanie Debroas |
|---|---|
| Přispěvatelé: | Médicaments et Technologies pour la Santé (MTS), Université Paris-Saclay-Direction de Recherche Fondamentale (CEA) (DRF (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Virulence bactérienne et maladies infectieuses (VBMI), Institut National de la Santé et de la Recherche Médicale (INSERM)-Université de Montpellier (UM), Salvy-Córdoba, Nathalie, ANR-17-CE18-0023,Phylopeptidomics,Identification rapide de bactéries pathogènes et résistances aux antibiotiques(2017) |
| Jazyk: | angličtina |
| Rok vydání: | 2020 |
| Předmět: |
0301 basic medicine
Proteomics MESH: Coronavirus Infections* / virology MESH: Pneumonia Viral* / virology Shotgun MESH: Coronavirus Infections* / diagnosis MESH: Nasopharynx / virology 02 engineering and technology Tandem mass spectrometry Biochemistry Viral protein detection COVID-19 Testing Tandem Mass Spectrometry viral protein detection nasopharyngeal swab [SDV.MHEP.MI]Life Sciences [q-bio]/Human health and pathology/Infectious diseases Nasopharynx MESH: Coronavirus Nucleocapsid Proteins MESH: Betacoronavirus / chemistry [SDV.MHEP.ME] Life Sciences [q-bio]/Human health and pathology/Emerging diseases 0303 health sciences MESH: Pneumonia Viral* / diagnosis [SDV.MHEP.ME]Life Sciences [q-bio]/Human health and pathology/Emerging diseases Diagnostic test Nucleocapsid Proteins 021001 nanoscience & nanotechnology 3. Good health MESH: Tandem Mass Spectrometry / methods [SDV.MHEP.MI] Life Sciences [q-bio]/Human health and pathology/Infectious diseases Nasopharyngeal swab Coronavirus Infections 0210 nano-technology MESH: Pandemics Coronavirus disease 2019 (COVID-19) Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) Pneumonia Viral Biology Mass spectrometry MESH: Phosphoproteins Article Virus Betacoronavirus 03 medical and health sciences [SDV.BBM] Life Sciences [q-bio]/Biochemistry Molecular Biology Coronavirus Nucleocapsid Proteins Humans [SDV.BBM]Life Sciences [q-bio]/Biochemistry Molecular Biology Pandemics 030304 developmental biology Immunodiagnostics 030102 biochemistry & molecular biology Clinical Laboratory Techniques SARS-CoV-2 COVID-19 General Chemistry Phosphoproteins Virology 030104 developmental biology [SDV.SPEE] Life Sciences [q-bio]/Santé publique et épidémiologie [SDV.SPEE]Life Sciences [q-bio]/Santé publique et épidémiologie Peptides MESH: Chromatography Liquid MESH: Clinical Laboratory Techniques / methods Chromatography Liquid |
| Zdroj: | Journal of Proteome Research Journal of Proteome Research, American Chemical Society, 2020, 19 (11), pp.4407-4416. ⟨10.1021/acs.jproteome.0c00535⟩ Journal of Proteome Research, 2020, 19 (11), pp.4407-4416. ⟨10.1021/acs.jproteome.0c00535⟩ |
| ISSN: | 1535-3893 1535-3907 |
| DOI: | 10.1021/acs.jproteome.0c00535⟩ |
| Popis: | International audience; Rapid but yet sensitive, specific, and high-throughput detection of the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) in clinical samples is key to diagnose infected people and to better control the spread of the virus. Alternative methodologies to PCR and immunodiagnostics that would not require specific reagents are worthy to investigate not only for fighting the COVID-19 pandemic but also to detect other emergent pathogenic threats. Here, we propose the use of tandem mass spectrometry to detect SARS-CoV-2 marker peptides in nasopharyngeal swabs. We documented that the signal from the microbiota present in such samples is low and can be overlooked when interpreting shotgun proteomic data acquired on a restricted window of the peptidome landscape. In this proof-of-concept study, simili nasopharyngeal swabs spiked with different quantities of purified SARS-CoV-2 viral material were used to develop a nanoLC-MS/MS acquisition method, which was then successfully applied on COVID-19 clinical samples. We argue that peptides ADETQALPQR and GFYAQGSR from the nucleocapsid protein are of utmost interest as their signal is intense and their elution can be obtained within a 3 min window in the tested conditions. These results pave the way for the development of time-efficient viral diagnostic tests based on mass spectrometry. |
| Databáze: | OpenAIRE |
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