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Mutations that adapt SARS-CoV-2 to mustelid hosts do not increase fitness in the human airway

View ORCID ProfileJie Zhou, View ORCID ProfileThomas P. Peacock, View ORCID ProfileJonathan C. Brown, View ORCID ProfileDaniel H. Goldhill, View ORCID ProfileAhmed M.E. Elrefaey, View ORCID ProfileRebekah Penrice-Randal, View ORCID ProfileVanessa M. Cowton, View ORCID ProfileGiuditta De Lorenzo, View ORCID ProfileWilhelm Furnon, View ORCID ProfileWilliam T. Harvey, View ORCID ProfileRuthiran Kugathasan, View ORCID ProfileRebecca Frise, View ORCID ProfileLaury Baillon, View ORCID ProfileRia Lassaunière, Nazia Thakur, Giulia Gallo, View ORCID ProfileHannah Goldswain, View ORCID ProfileI’ah Donovan-Banfield, View ORCID ProfileXiaofeng Dong, View ORCID ProfileNadine P. Randle, Fiachra Sweeney, Martha C. Glynn, View ORCID ProfileJessica L. Quantrill, View ORCID ProfilePaul F. McKay, View ORCID ProfileArvind H. Patel, Massimo Palmarini, Julian A. Hiscox, View ORCID ProfileDalan Bailey, View ORCID ProfileWendy S. Barclay
doi: https://doi.org/10.1101/2021.08.20.456972
Jie Zhou
1Department of Infectious Disease, Imperial College London, UK
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Thomas P. Peacock
1Department of Infectious Disease, Imperial College London, UK
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Jonathan C. Brown
1Department of Infectious Disease, Imperial College London, UK
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Daniel H. Goldhill
1Department of Infectious Disease, Imperial College London, UK
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Ahmed M.E. Elrefaey
2The Pirbright Institute, Woking, Surrey, UK
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Rebekah Penrice-Randal
3Institute of Infection, Veterinary and Ecology Sciences, University of Liverpool, UK
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Vanessa M. Cowton
4MRC-University of Glasgow Centre for Virus Research, Glasgow, UK
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Giuditta De Lorenzo
4MRC-University of Glasgow Centre for Virus Research, Glasgow, UK
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Wilhelm Furnon
4MRC-University of Glasgow Centre for Virus Research, Glasgow, UK
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William T. Harvey
4MRC-University of Glasgow Centre for Virus Research, Glasgow, UK
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Ruthiran Kugathasan
1Department of Infectious Disease, Imperial College London, UK
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Rebecca Frise
1Department of Infectious Disease, Imperial College London, UK
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Laury Baillon
1Department of Infectious Disease, Imperial College London, UK
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Ria Lassaunière
5Virus & Microbiological Special Diagnostics, Statens Serum Institut, Copenhagen, Denmark
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Nazia Thakur
2The Pirbright Institute, Woking, Surrey, UK
6The Jenner Institute, Nuffield Department of Medicine, University of Oxford, UK
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Giulia Gallo
2The Pirbright Institute, Woking, Surrey, UK
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Hannah Goldswain
3Institute of Infection, Veterinary and Ecology Sciences, University of Liverpool, UK
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I’ah Donovan-Banfield
3Institute of Infection, Veterinary and Ecology Sciences, University of Liverpool, UK
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Xiaofeng Dong
3Institute of Infection, Veterinary and Ecology Sciences, University of Liverpool, UK
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Nadine P. Randle
3Institute of Infection, Veterinary and Ecology Sciences, University of Liverpool, UK
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Fiachra Sweeney
1Department of Infectious Disease, Imperial College London, UK
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Martha C. Glynn
1Department of Infectious Disease, Imperial College London, UK
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Jessica L. Quantrill
1Department of Infectious Disease, Imperial College London, UK
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Paul F. McKay
1Department of Infectious Disease, Imperial College London, UK
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Arvind H. Patel
4MRC-University of Glasgow Centre for Virus Research, Glasgow, UK
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Massimo Palmarini
4MRC-University of Glasgow Centre for Virus Research, Glasgow, UK
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Julian A. Hiscox
3Institute of Infection, Veterinary and Ecology Sciences, University of Liverpool, UK
7Infectious Diseases Horizontal Technology Centre (ID HTC), A*STAR, Singapore
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Dalan Bailey
2The Pirbright Institute, Woking, Surrey, UK
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Wendy S. Barclay
1Department of Infectious Disease, Imperial College London, UK
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  • ORCID record for Wendy S. Barclay
  • For correspondence: w.barclay@imperial.ac.uk
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Abstract

SARS-CoV-2 has a broad mammalian species tropism infecting humans, cats, dogs and farmed mink. Since the start of the 2019 pandemic several reverse zoonotic outbreaks of SARS-CoV-2 have occurred in mink, one of which reinfected humans and caused a cluster of infections in Denmark. Here we investigate the molecular basis of mink and ferret adaptation and demonstrate the spike mutations Y453F, F486L, and N501T all specifically adapt SARS-CoV-2 to use mustelid ACE2. Furthermore, we risk assess these mutations and conclude mink-adapted viruses are unlikely to pose an increased threat to humans, as Y453F attenuates the virus replication in human cells and all 3 mink-adaptations have minimal antigenic impact. Finally, we show that certain SARS-CoV-2 variants emerging from circulation in humans may naturally have a greater propensity to infect mustelid hosts and therefore these species should continue to be surveyed for reverse zoonotic infections.

Competing Interest Statement

The authors have declared no competing interest.

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC 4.0 International license.
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Posted August 20, 2021.
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Mutations that adapt SARS-CoV-2 to mustelid hosts do not increase fitness in the human airway
Jie Zhou, Thomas P. Peacock, Jonathan C. Brown, Daniel H. Goldhill, Ahmed M.E. Elrefaey, Rebekah Penrice-Randal, Vanessa M. Cowton, Giuditta De Lorenzo, Wilhelm Furnon, William T. Harvey, Ruthiran Kugathasan, Rebecca Frise, Laury Baillon, Ria Lassaunière, Nazia Thakur, Giulia Gallo, Hannah Goldswain, I’ah Donovan-Banfield, Xiaofeng Dong, Nadine P. Randle, Fiachra Sweeney, Martha C. Glynn, Jessica L. Quantrill, Paul F. McKay, Arvind H. Patel, Massimo Palmarini, Julian A. Hiscox, Dalan Bailey, Wendy S. Barclay
bioRxiv 2021.08.20.456972; doi: https://doi.org/10.1101/2021.08.20.456972
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Mutations that adapt SARS-CoV-2 to mustelid hosts do not increase fitness in the human airway
Jie Zhou, Thomas P. Peacock, Jonathan C. Brown, Daniel H. Goldhill, Ahmed M.E. Elrefaey, Rebekah Penrice-Randal, Vanessa M. Cowton, Giuditta De Lorenzo, Wilhelm Furnon, William T. Harvey, Ruthiran Kugathasan, Rebecca Frise, Laury Baillon, Ria Lassaunière, Nazia Thakur, Giulia Gallo, Hannah Goldswain, I’ah Donovan-Banfield, Xiaofeng Dong, Nadine P. Randle, Fiachra Sweeney, Martha C. Glynn, Jessica L. Quantrill, Paul F. McKay, Arvind H. Patel, Massimo Palmarini, Julian A. Hiscox, Dalan Bailey, Wendy S. Barclay
bioRxiv 2021.08.20.456972; doi: https://doi.org/10.1101/2021.08.20.456972

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