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Development and Validation of an In-House Real-Time Reverse-Transcriptase Polymerase Chain Reaction Assay for SARS-CoV-2 Omicron Lineage Subtyping between BA.1 and BA.2.
Pham, David; Maddocks, Susan; Dwyer, Dominic E; Sintchenko, Vitali; Kok, Jen; Rockett, Rebecca J.
  • Pham D; Centre for Infectious Diseases & Microbiology Laboratory Services, New South Wales Health, Pathology-Institute of Clinical Pathology & Medical Research, Westmead Hospital, Westmead, NSW 2145, Australia.
  • Maddocks S; Centre for Infectious Diseases & Microbiology Laboratory Services, New South Wales Health, Pathology-Institute of Clinical Pathology & Medical Research, Westmead Hospital, Westmead, NSW 2145, Australia.
  • Dwyer DE; Sydney Infectious Diseases Institute, The University of Sydney, Westmead, NSW 2145, Australia.
  • Sintchenko V; Centre for Infectious Diseases & Microbiology Laboratory Services, New South Wales Health, Pathology-Institute of Clinical Pathology & Medical Research, Westmead Hospital, Westmead, NSW 2145, Australia.
  • Kok J; Sydney Infectious Diseases Institute, The University of Sydney, Westmead, NSW 2145, Australia.
  • Rockett RJ; Centre for Infectious Diseases & Microbiology-Public Health, Westmead Hospital, Westmead, NSW 2145, Australia.
Viruses ; 14(8)2022 08 12.
Article in English | MEDLINE | ID: covidwho-1987989
ABSTRACT
In order to rapidly differentiate sublineages BA.1 and BA.2 of the SARS-CoV-2 variant of concern Omicron, we developed a real-time reverse-transcriptase polymerase chain reaction to target the discriminatory spike protein deletion at amino acid position 69-70 (Sdel69-70). Compared to the gold standard of whole genome sequencing, the candidate assay was 100% sensitive and 99.4% specific. Sublineage typing by RT-PCR can provide a rapid, high throughput and cost-effective method to enhance surveillance as well as potentially guiding treatment and infection control decisions.
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Full text: Available Collection: International databases Database: MEDLINE Main subject: SARS-CoV-2 / COVID-19 Type of study: Diagnostic study / Prognostic study Topics: Variants Limits: Humans Language: English Year: 2022 Document Type: Article Affiliation country: V14081760

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Full text: Available Collection: International databases Database: MEDLINE Main subject: SARS-CoV-2 / COVID-19 Type of study: Diagnostic study / Prognostic study Topics: Variants Limits: Humans Language: English Year: 2022 Document Type: Article Affiliation country: V14081760