SARS-CoV-2 coinfections with variant genomic lineages identified by multiplex fragment analysis

Richard Lueking, Andrew Clark, Madhusudhanan Narasimhan, Lenin Mahimainathan, Alagarraju Muthukumar, Christian P. Larsen, Jeffrey A. SoRelle

Research output: Contribution to journalArticlepeer-review

Abstract

Immunocompromised patients can experience prolonged SARS-CoV-2 infections in the setting of a lack of protectivity immunity despite vaccination. As circulating SARS-CoV-2 strains become more heterogeneous, concomitant infection with multiple SARS-CoV-2 variants has become an increasing concern. Immunocompromised patient populations represent potential reservoirs for the emergence of novel SARS-CoV-2 variants through mutagenic change or coinfection followed by recombinatory events. Identification of SARS-CoV-2 coinfections is challenging using traditional next generation sequencing pipelines; however, targeted genotyping approaches can facilitate detection. Here we describe five COVID-19 cases caused by coinfection with different SARS-CoV-2 variants (Delta/Omicron BA.1 and Omicron BA.1/BA.2) as identified by multiplex fragment analysis.

Original languageEnglish (US)
Article number942713
JournalFrontiers in Genetics
Volume13
DOIs
StatePublished - Sep 26 2022

Keywords

  • co-infection
  • COVID-19
  • fragment analysis
  • multiplex (RT)-PCR
  • omicron
  • SARS-CoV-2
  • variant

ASJC Scopus subject areas

  • Molecular Medicine
  • Genetics
  • Genetics(clinical)

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