SARS-CoV-2 variants of concern surveillance including Omicron using RT-PCR–based genotyping offers comparable performance to whole genome sequencing

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 se...

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Bibliographic Details
Published in:Frontiers in cellular and infection microbiology 2022-11, Vol.12, p.960065-960065
Main Authors: Vanoni, Simone, Matulevicius, Arnoldas, Avdiu, Besard, Scantamburlo, Giada, Ulekleiv, Camilla, Brzoska, Pius M., Furtado, Manohar R., Feenstra, Jelena D. M., Rico, Alain, Gandhi, Manoj, Giacobazzi, Elisabetta, Masi, Elisa, Paulmichl, Markus, Nofziger, Charity
Format: Article
Language:English
Subjects:
alpha
Cellular and Infection Microbiology
COVID-19
delta
omicron
SARS-CoV-2
variants of concern
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Summary: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.
ISSN:2235-2988
2235-2988
DOI:10.3389/fcimb.2022.960065