Evidence of co-infection during Delta and Omicron variants of concern co-circulation, weeks 49-2021 to 02-2022, France

  1. Patricia Combes
  2. Maxime Bisseux
  3. Antonin Bal
  4. Pierre Marin
  5. Christine Archimbaud
  6. Amélie Brebion
  7. Hélène Chabrolles
  8. Christel Regagnon
  9. Jérémy Lafolie
  10. Gregory Destras
  11. Bruno Simon
  12. Laurence Josset
  13. Cécile Henquell
  14. Audrey Mirand
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Abstract

We report evidence of Delta/Omicron SARS-CoV-2 co-infections during the fifth wave of COVID-19 pandemics in France for 7 immunocompetent and epidemiologically unrelated patients. These co-infections were detected by PCR assays targeting SARS-CoV-2 S-gene mutations K417N and L452R and confirmed by whole genome sequencing which allowed the proportion estimation of each subpopulation. For 2 patients, the analyses of longitudinal samples collected 7 to 11 days apart showed that Delta or Omicron can outcompete the other variant during dual infection.

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