New Results
Identification of a Novel SARS-CoV-2 Delta-Omicron Recombinant Virus in the United States
View ORCID ProfileKristine A. Lacek, View ORCID ProfileBenjamin L. Rambo-Martin, View ORCID ProfileDhwani Batra, Xiao-yu Zheng, Hitoshi Sakaguchi, Thomas Peacock, View ORCID ProfileMatthew Keller, View ORCID ProfileMalania M. Wilson, Mili Sheth, Morgan L. Davis, Mark Borroughs, Jonathan Gerhart, View ORCID ProfileNorman Hassell, View ORCID ProfileSamuel S. Shepard, View ORCID ProfilePeter W. Cook, View ORCID ProfileJustin Lee, View ORCID ProfileDavid E. Wentworth, View ORCID ProfileJohn R. Barnes, View ORCID ProfileRebecca Kondor, View ORCID ProfileClinton R. Paden
doi: https://doi.org/10.1101/2022.03.19.484981
Kristine A. Lacek
1Laboratory and Testing Task Force, COVID-19 Emergency Response, Centers for Disease Control and Prevention, Atlanta, GA 30329
Benjamin L. Rambo-Martin
1Laboratory and Testing Task Force, COVID-19 Emergency Response, Centers for Disease Control and Prevention, Atlanta, GA 30329
Dhwani Batra
1Laboratory and Testing Task Force, COVID-19 Emergency Response, Centers for Disease Control and Prevention, Atlanta, GA 30329
Xiao-yu Zheng
1Laboratory and Testing Task Force, COVID-19 Emergency Response, Centers for Disease Control and Prevention, Atlanta, GA 30329
Hitoshi Sakaguchi
Thomas Peacock
2UK Health Security Agency
3Department of Infectious Disease, Imperial College London, UK, W2 1PG
Matthew Keller
1Laboratory and Testing Task Force, COVID-19 Emergency Response, Centers for Disease Control and Prevention, Atlanta, GA 30329
Malania M. Wilson
1Laboratory and Testing Task Force, COVID-19 Emergency Response, Centers for Disease Control and Prevention, Atlanta, GA 30329
Mili Sheth
1Laboratory and Testing Task Force, COVID-19 Emergency Response, Centers for Disease Control and Prevention, Atlanta, GA 30329
Morgan L. Davis
1Laboratory and Testing Task Force, COVID-19 Emergency Response, Centers for Disease Control and Prevention, Atlanta, GA 30329
Mark Borroughs
1Laboratory and Testing Task Force, COVID-19 Emergency Response, Centers for Disease Control and Prevention, Atlanta, GA 30329
Jonathan Gerhart
1Laboratory and Testing Task Force, COVID-19 Emergency Response, Centers for Disease Control and Prevention, Atlanta, GA 30329
4ASRT Incorporated, Smyrna, GA 30080
Norman Hassell
1Laboratory and Testing Task Force, COVID-19 Emergency Response, Centers for Disease Control and Prevention, Atlanta, GA 30329
Samuel S. Shepard
1Laboratory and Testing Task Force, COVID-19 Emergency Response, Centers for Disease Control and Prevention, Atlanta, GA 30329
Peter W. Cook
1Laboratory and Testing Task Force, COVID-19 Emergency Response, Centers for Disease Control and Prevention, Atlanta, GA 30329
Justin Lee
1Laboratory and Testing Task Force, COVID-19 Emergency Response, Centers for Disease Control and Prevention, Atlanta, GA 30329
David E. Wentworth
1Laboratory and Testing Task Force, COVID-19 Emergency Response, Centers for Disease Control and Prevention, Atlanta, GA 30329
John R. Barnes
1Laboratory and Testing Task Force, COVID-19 Emergency Response, Centers for Disease Control and Prevention, Atlanta, GA 30329
Rebecca Kondor
1Laboratory and Testing Task Force, COVID-19 Emergency Response, Centers for Disease Control and Prevention, Atlanta, GA 30329
Clinton R. Paden
1Laboratory and Testing Task Force, COVID-19 Emergency Response, Centers for Disease Control and Prevention, Atlanta, GA 30329

Abstract
Recombination between SARS-CoV-2 virus variants can result in different viral properties (e.g., infectiousness or pathogenicity). In this report, we describe viruses with recombinant genomes containing signature mutations from Delta and Omicron variants. These genomes are the first evidence for a Delta-Omicron hybrid Spike protein in the United States.
Competing Interest Statement
The authors have declared no competing interest.
Footnotes
Disclaimer: The findings and conclusions in this report are those of the authors and do not necessarily represent the official position of the Centers for Disease Control and Prevention.
Copyright
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. This article is a US Government work. It is not subject to copyright under 17 USC 105 and is also made available for use under a CC0 license.
Posted March 21, 2022.
Identification of a Novel SARS-CoV-2 Delta-Omicron Recombinant Virus in the United States
Kristine A. Lacek, Benjamin L. Rambo-Martin, Dhwani Batra, Xiao-yu Zheng, Hitoshi Sakaguchi, Thomas Peacock, Matthew Keller, Malania M. Wilson, Mili Sheth, Morgan L. Davis, Mark Borroughs, Jonathan Gerhart, Norman Hassell, Samuel S. Shepard, Peter W. Cook, Justin Lee, David E. Wentworth, John R. Barnes, Rebecca Kondor, Clinton R. Paden
bioRxiv 2022.03.19.484981; doi: https://doi.org/10.1101/2022.03.19.484981
Identification of a Novel SARS-CoV-2 Delta-Omicron Recombinant Virus in the United States
Kristine A. Lacek, Benjamin L. Rambo-Martin, Dhwani Batra, Xiao-yu Zheng, Hitoshi Sakaguchi, Thomas Peacock, Matthew Keller, Malania M. Wilson, Mili Sheth, Morgan L. Davis, Mark Borroughs, Jonathan Gerhart, Norman Hassell, Samuel S. Shepard, Peter W. Cook, Justin Lee, David E. Wentworth, John R. Barnes, Rebecca Kondor, Clinton R. Paden
bioRxiv 2022.03.19.484981; doi: https://doi.org/10.1101/2022.03.19.484981
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