Multiplex qPCR Discriminates Variants of Concern to Enhance Global Surveillance of SARS-CoV-2

Brazil-UK CADDE Genomic Network, Network for Genomic Surveillance in South Africa

Research output: Chapter in Book/Report/Conference proceedingChapterpeer-review

Abstract

Broadly accessible and inexpensive surveillance methods are needed to track Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) variants of concern (VOC) around the world. While sequencing is the gold standard to identify circulating SARS-CoV-2 variants, routine genomic surveillance is not available in many locations primarily due to a lack of resources and expertise. The Institutional Review Board from the Yale University Human Research Protection Program determined that the RT-qPCR testing and sequencing of de-identified remnant COVID-19 clinical samples conducted in this study is not research involving human patients. Multiplex-PCR products were purified by using AmpureXP beads, and quantification was carried out using the Qubit dsDNA High Sensitivity assay on the Qubit 3.0.

Original languageEnglish
Title of host publicationAdvances in Medical Imaging, Detection, and Diagnosis
PublisherJenny Stanford Publishing
Pages891-905
Number of pages15
ISBN (Electronic)9781000602043
ISBN (Print)9789814877466
DOIs
StatePublished - 1 Jan 2023
Externally publishedYes

Keywords

  • Coronavirus Disease 2019 (COVID-19)
  • Institutional Review Board (IRB)
  • Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2)
  • complementary DNA (cDNA)
  • cycle threshold (Ct)
  • global initiative on sharing avian influenza data (GISAID)
  • open reading frame (ORF)
  • reverse transcriptase quantitative PCR (RT-qPCR)
  • spike gene target failure (SGTF)
  • variants of concern (VOC)
  • variants of interest (VOI)

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