Mutation Y453F in the spike protein of SARS-CoV-2 enhances interaction with the mink ACE2 receptor for host adaption

PLoS Pathog. 2021 Nov 8;17(11):e1010053. doi: 10.1371/journal.ppat.1010053. eCollection 2021 Nov.

Abstract

COVID-19 patients transmitted SARS-CoV-2 to minks in the Netherlands in April 2020. Subsequently, the mink-associated virus (miSARS-CoV-2) spilled back over into humans. Genetic sequences of the miSARS-CoV-2 identified a new genetic variant known as "Cluster 5" that contained mutations in the spike protein. However, the functional properties of these "Cluster 5" mutations have not been well established. In this study, we found that the Y453F mutation located in the RBD domain of miSARS-CoV-2 is an adaptive mutation that enhances binding to mink ACE2 and other orthologs of Mustela species without compromising, and even enhancing, its ability to utilize human ACE2 as a receptor for entry. Structural analysis suggested that despite the similarity in the overall binding mode of SARS-CoV-2 RBD to human and mink ACE2, Y34 of mink ACE2 was better suited to interact with a Phe rather than a Tyr at position 453 of the viral RBD due to less steric clash and tighter hydrophobic-driven interaction. Additionally, the Y453F spike exhibited resistance to convalescent serum, posing a risk for vaccine development. Thus, our study suggests that since the initial transmission from humans, SARS-CoV-2 evolved to adapt to the mink host, leading to widespread circulation among minks while still retaining its ability to efficiently utilize human ACE2 for entry, thus allowing for transmission of the miSARS-CoV-2 back into humans. These findings underscore the importance of active surveillance of SARS-CoV-2 evolution in Mustela species and other susceptible hosts in order to prevent future outbreaks.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Adult
  • Aged
  • Angiotensin-Converting Enzyme 2 / genetics
  • Angiotensin-Converting Enzyme 2 / metabolism*
  • Animals
  • Binding Sites
  • COVID-19 / epidemiology*
  • COVID-19 / immunology
  • COVID-19 / therapy
  • COVID-19 / transmission
  • COVID-19 / virology
  • COVID-19 Serotherapy
  • Female
  • Host Adaptation*
  • Humans
  • Immunization, Passive / statistics & numerical data
  • Male
  • Middle Aged
  • Mink / immunology*
  • Mink / virology
  • Molecular Dynamics Simulation
  • Mutation*
  • Netherlands / epidemiology
  • Protein Binding
  • SARS-CoV-2 / genetics
  • SARS-CoV-2 / isolation & purification*
  • Spike Glycoprotein, Coronavirus / genetics*
  • Spike Glycoprotein, Coronavirus / metabolism
  • Virus Internalization
  • Young Adult

Substances

  • Spike Glycoprotein, Coronavirus
  • Angiotensin-Converting Enzyme 2

Grants and funding

National Natural Science Foundation of China (32070153 to QD), Tsinghua University Spring Breeze Fund (2021Z99CFY030 to QD), Beijing Municipal Natural Science Foundation (M21001 to QD), the Postdoctoral Science Foundation of China (2021TQ0182 to XJ), Shuimu Tsinghua Scholar Program (XJ), Start-up Foundation of Tsinghua University (53332101319 to QD). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.