Reduced amplification efficiency of the RNA-dependent-RNA-polymerase (RdRp) target enables tracking of the Delta SARS-CoV-2 variant using routine diagnostic tests

  1. Ziyaad Valley-Omar
  2. Gert Marais
  3. Arash Iranzadeh
  4. Michelle Naidoo
  5. Stephen Korsman
  6. Tongai Maponga
  7. Hannah Hussey
  8. Mary-Ann Davies
  9. Andrew Boulle
  10. Deelan Doolabh
  11. Mariska Laubscher
  12. JD Deetlefs
  13. Jean Maritz
  14. Lesley Scott
  15. Nokukhanya Msomi
  16. Houriiyah Tegally
  17. Tulio de Oliveira
  18. Jinal Bhiman
  19. Carolyn Williamson
  20. Wolfgang Preiser
  21. Diana Hardie
  22. Nei-yuan Hsiao
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Abstract

Routine SARS-CoV-2 surveillance in the Western Cape region of South Africa (January-August 2021) found a reduced PCR amplification efficiency of the RdRp gene target of the Seegene, Allplex 2019-nCoV diagnostic assay when detecting the Delta variant. We propose that this can be used as a surrogate for variant detection.

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