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Trends of Mismatches in Real-Time RT-PCR Assays Developed by the National Institute of Infectious Diseases, Japan for Omicron Variant of Severe Acute Respiratory Syndrome Coronavirus 2.
- Source :
-
Japanese journal of infectious diseases [Jpn J Infect Dis] 2023 May 24; Vol. 76 (3), pp. 204-206. Date of Electronic Publication: 2022 Dec 28. - Publication Year :
- 2023
-
Abstract
- The Omicron variant of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) emerged in late 2021 and gradually overtook the Delta variant, which was the predominant variant at that time. The Omicron variant has been consecutively replaced by related sublineages. The real-time RT-PCR assays developed by the National Institute of Infectious Diseases (NIID), Japan (i.e., the NIID-N2 and NIID-S2 assays) are the reference assays that have been used in Japan since the outbreak of SARS-CoV-2. To evaluate the applicability of the NIID assays for the Omicron variants, trends in the prevalence of nucleotide mismatches in the primer/probe sequences were traced using sequences registered in the Global Initiative on Sharing Avian Influenza Data database. Approximately 99% of the deposited Omicron variant sequences did not have any mismatches in the NIID assay primer/probes from January to August 2022. This indicates that the NIID assays have been able to detect the changing SARS-CoV-2 Omicron variants.
Details
- Language :
- English
- ISSN :
- 1884-2836
- Volume :
- 76
- Issue :
- 3
- Database :
- MEDLINE
- Journal :
- Japanese journal of infectious diseases
- Publication Type :
- Academic Journal
- Accession number :
- 36575025
- Full Text :
- https://doi.org/10.7883/yoken.JJID.2022.556