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Rapid detection of SARS-CoV-2 variants using allele-specific PCR.
Brito-Mutunayagam, Sanjita; Maloney, Daniel; McAllister, Gina; Dewar, Rebecca; McHugh, Martin; Templeton, Kate.
  • Brito-Mutunayagam S; Medical Microbiology and Virology Service, Royal Infirmary of Edinburgh, NHS Lothian, Edinburgh, United Kingdom. Electronic address: s.brito-mutunayagam@nhslothian.scot.nhs.uk.
  • Maloney D; Medical Microbiology and Virology Service, Royal Infirmary of Edinburgh, NHS Lothian, Edinburgh, United Kingdom. Electronic address: Daniel.maloney@nhslothian.scot.nhs.uk.
  • McAllister G; Medical Microbiology and Virology Service, Royal Infirmary of Edinburgh, NHS Lothian, Edinburgh, United Kingdom. Electronic address: Gina.mccallister@nhslothian.scot.nhs.uk.
  • Dewar R; Medical Microbiology and Virology Service, Royal Infirmary of Edinburgh, NHS Lothian, Edinburgh, United Kingdom. Electronic address: Rebecca.dewar@nhslothian.scot.nhs.uk.
  • McHugh M; Medical Microbiology and Virology Service, Royal Infirmary of Edinburgh, NHS Lothian, Edinburgh, United Kingdom. Electronic address: Martin.mchugh@nhslothian.scot.nhs.uk.
  • Templeton K; Medical Microbiology and Virology Service, Royal Infirmary of Edinburgh, NHS Lothian, Edinburgh, United Kingdom. Electronic address: Kate.templeton@nhslothian.scot.nhs.uk.
J Virol Methods ; 303: 114497, 2022 05.
Article in English | MEDLINE | ID: covidwho-1693166
ABSTRACT
Tracking severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) variants through whole genome sequencing (WGS) is vital for effective infection control and prevention (IPC) measures, but can be time-consuming and resource-heavy. We describe an in-house validation of an allele-specific polymerase chain reaction (ASP) variant assay to detect variants of concern (VOC). ASP sensitivity for detecting Delta, Alpha and Beta was 99.45 %, 100 %, and 66.67 %, respectively, compared with WGS. Specificity was 100 % in detecting all three VOC. ASP generated results 1.3 days faster compared with WGS. These findings suggest using variant assays such as ASP may enhance epidemiological surveillance and IPC measures.
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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 Journal: J Virol Methods Year: 2022 Document Type: Article

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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 Journal: J Virol Methods Year: 2022 Document Type: Article