SARS-CoV-2 variants of concern surveillance including Omicron using RT-PCR-based genotyping offers comparable performance to whole genome sequencing.
COVID-19
SARS-CoV-2
alpha
delta
mutation panel
omicron
variants of concern
whole genome sequencing
Journal
Frontiers in cellular and infection microbiology
ISSN: 2235-2988
Titre abrégé: Front Cell Infect Microbiol
Pays: Switzerland
ID NLM: 101585359
Informations de publication
Date de publication:
2022
2022
Historique:
received:
02
06
2022
accepted:
04
10
2022
entrez:
21
11
2022
pubmed:
22
11
2022
medline:
23
11
2022
Statut:
epublish
Résumé
Known SARS-CoV-2 variants of concern (VOCs) can be detected and differentiated using an RT-PCR-based genotyping approach, which offers quicker time to result, lower cost, higher flexibility, and use of the same laboratory instrumentation for detection of SARS-CoV-2 when compared with whole genome sequencing (WGS). In the current study, we demonstrate how we applied a genotyping approach for identification of all VOCs and that such technique can offer comparable performance to WGS for identification of known SARS-CoV-2 VOCs, including more recent strains, Omicron BA.1 and BA.2.
Identifiants
pubmed: 36405967
doi: 10.3389/fcimb.2022.960065
pmc: PMC9670535
doi:
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
960065Informations de copyright
Copyright © 2022 Vanoni, Matulevicius, Avdiu, Scantamburlo, Ulekleiv, Brzoska, Furtado, Feenstra, Rico, Gandhi, Giacobazzi, Masi, Paulmichl and Nofziger.
Déclaration de conflit d'intérêts
SV, AM, BA, GS, and CN are employees of PharmGenetix GmbH. CU, PB, MF, JF, AR, and MG are employees of Thermo Fisher Scientific. MP is employed by Privatklinik Maria Hilf GmbH. The remaining authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest. Thermo Fisher Scientific provided the reagents for the study.
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