ArticleMed (New York, N.Y.)2022
Evidence for SARS-CoV-2 Delta and Omicron co-infections and recombination.
Article in Med (New York, N.Y.), 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 59 papers.
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Who cites it
59 citing papers in PubMed.
- Imported SARS-CoV-2 Infections at N'djili International Airport in Kinshasa, Democratic Republic of Congo: An Epidemiological and Genomic Analysis.Influenza and other respiratory viruses · 2026Article
- Virus variant quantification with Orthanq.BMC bioinformatics · 2026Article
- Near Neutral Selectionist Theories (NNST) for SARS-CoV-2 suggested by the substitution-mutation ratio (c/µ) analysis.PloS one · 2026Article
- Integration of bioinformatic tools for the detection of SARS-CoV-2 co-infection cases.Microbial genomics · 2026Article
- A public health perspective of SARS-CoV-2 evolution and surveillance strategies in Germany from 2020 to 2023.Communications medicine · 2025Review
- Modelling behavioural changes and vaccination in the transmission of respiratory viruses with co-infection.Journal of mathematical biology · 2025Article
- XBB.1.5 mRNA COVID-19 vaccine protection against inpatient or emergency department visits among adults infected with SARS-CoV-2 JN.1 and XBB-lineage variants.Frontiers in immunology · 2025Article
- Article
- Enhancing the epidemiological surveillance of SARS-CoV-2 using Sanger sequencing to identify circulating variants and recombinants.Brazilian journal of microbiology : [publication of the Brazilian Society for Microbiology] · 2024Article
- Article
- Detection of co-infection and recombination cases with Omicron and local Delta variants of SARS-CoV-2 in Vietnam.Scientific reports · 2024Article
- Article
- Identification of Various Recombinants in a Patient Coinfected With the Different SARS-CoV-2 Variants.Influenza and other respiratory viruses · 2024Article
- Review
- Data-driven recombination detection in viral genomes.Nature communications · 2024Article
- Systematic detection of co-infection and intra-host recombination in more than 2 million global SARS-CoV-2 samples.Nature communications · 2024Article
- SARS-CoV-2 Co-Infections and Recombinations Identified by Long-Read Single-Molecule Real-Time Sequencing.Microbiology spectrum · 2023Article
- SARS-CoV-2 Recombination and Coinfection Events Identified in Clinical Samples in Russia.Viruses · 2023Article
- Systematic genomic analysis of SARS-CoV-2 co-infections throughout the pandemic and segregation of the strains involved.Genome medicine · 2023Article
- Wastewater surveillance uncovers regional diversity and dynamics of SARS-CoV-2 variants across nine states in the USA.The Science of the total environment · 2023Article
Corrections and comments
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Authors and funding
30 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundBetween November 2021 and February 2022, severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) Delta and Omicron variants co-circulated in the United States, allowing for co-infections and possible recombination events.
methodsWe sequenced 29,719 positive samples during this period and analyzed the presence and fraction of reads supporting mutations specific to either the Delta or Omicron variant.
findingsWe identified 18 co-infections, one of which displayed evidence of a low Delta-Omicron recombinant viral population. We also identified two independent cases of infection by a Delta-Omicron recombinant virus, where 100% of the viral RNA came from one clonal recombinant. In the three cases, the 5' end of the viral genome was from the Delta genome and the 3' end from Omicron, including the majority of the spike protein gene, though the breakpoints were different.
conclusionsDelta-Omicron recombinant viruses were rare, and there is currently no evidence that Delta-Omicron recombinant viruses are more transmissible between hosts compared with the circulating Omicron lineages.
fundingThis research was supported by the NIH RADx initiative and by the Centers for Disease Control Contract 75D30121C12730 (Helix).
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