Literature detail

ACE2 binding is an ancestral and evolvable trait of sarbecoviruses.

Tyler N Starr1,2 Samantha K Zepeda3 Alexandra C Walls3 Allison J Greaney4,5 Sergey Alkhovsky6 David Veesler7,8 Jesse D Bloom9,10,11
Affiliations 11 institutions
  1. Basic Sciences Division, Fred Hutchinson Cancer Research Center, Seattle, WA, USA. [email protected].
  2. Howard Hughes Medical Institute, Seattle, WA, USA. [email protected].
  3. Department of Biochemistry, University of Washington, Seattle, WA, USA.
  4. Basic Sciences Division, Fred Hutchinson Cancer Research Center, Seattle, WA, USA.
  5. Department of Genome Sciences, University of Washington, Seattle, WA, USA.
  6. N.F. Gamleya National Center of Epidemiology and Microbiology, Ministry of Health of the Russian Federation, Moscow, Russia.
  7. Howard Hughes Medical Institute, Seattle, WA, USA. [email protected].
  8. Department of Biochemistry, University of Washington, Seattle, WA, USA. [email protected].
  9. Basic Sciences Division, Fred Hutchinson Cancer Research Center, Seattle, WA, USA. [email protected].
  10. Howard Hughes Medical Institute, Seattle, WA, USA. [email protected].
  11. Department of Genome Sciences, University of Washington, Seattle, WA, USA. [email protected].
PMID 35114688 2022 Nature eng ppublish
PubMed DOI Browse context

Article

Publication summary

Two different sarbecoviruses have caused major human outbreaks in the past two decades<sup>1,2</sup>. Both of these sarbecoviruses, SARS-CoV-1 and SARS-CoV-2, engage ACE2 through the spike receptor-binding domain<sup>2-6</sup>. However, binding to ACE2 orthologues of humans, bats and other species has been observed only sporadically among the broader diversity of bat sarbecoviruses<sup>7-11</sup>. Here we use high-throughput assays<sup>12</sup> to trace the evolutionary history of ACE2 binding across a diverse range of sarbecoviruses and ACE2 orthologues. We find that ACE2 binding is an ancestral trait of sarbecovirus receptor-binding domains that has subsequently been lost in some clades. Furthermore, we reveal that bat sarbecoviruses from outside Asia can bind to ACE2. Moreover, ACE2 binding is highly evolvable-for many sarbecovirus receptor-binding domains, there are single amino-acid mutations that enable binding to new ACE2 orthologues. However, the effects of individual mutations can differ considerably between viruses, as shown by the N501Y mutation, which enhances the human ACE2-binding affinity of several SARS-CoV-2 variants of concern<sup>12</sup> but substantially decreases it for SARS-CoV-1. Our results point to the deep ancestral origin and evolutionary plasticity of ACE2 binding, broadening the range of sarbecoviruses that should be considered to have spillover potential.

Angiotensin-Converting Enzyme 2 Evolution, Molecular SARS-CoV-2 Severe acute respiratory syndrome-related coronavirus Spike Glycoprotein, Coronavirus Animals Binding Sites Chiroptera COVID-19 Humans Protein Binding SARS-CoV-2 variants spike protein, SARS-CoV-2

Structured evidence records

Evidence records

4 total
2 records
Extraction confidence 0.90
Key finding

Evolutionary analysis of sarbecovirus spike receptor-binding domains shows that ACE2 binding is an ancestral trait lost in some viral clades.

Virus
Host
Location
Not specified
Supporting text

Here we use high-throughput assays to trace the evolutionary history of ACE2 binding across a diverse range of sarbecoviruses and ACE2 orthologues. We find that ACE2 binding is an ancestral trait of sarbecovirus receptor-binding domains that has subsequently been lost in some clades.

Genes or proteins
spike; receptor-binding domain
Analysis methods
evolutionary analysis
Extraction confidence 0.90
Key finding

Mutation-level evolutionary comparison shows that N501Y increases ACE2 affinity in several SARS-CoV-2 variants but reduces it in SARS-CoV-1, demonstrating lineage-specific molecular evolution.

Virus
Location
Not specified
Supporting text

For many sarbecovirus receptor-binding domains, there are single amino-acid mutations that enable binding to new ACE2 orthologues. The N501Y mutation enhances human ACE2-binding affinity of several SARS-CoV-2 variants but decreases it for SARS-CoV-1.

Genes or proteins
spike; receptor-binding domain; N501Y
Analysis methods
mutation analysis; comparative evolutionary analysis
1 records
Extraction confidence 0.95
Key finding

The N501Y mutation in the spike receptor-binding domain increases ACE2-binding affinity in SARS-CoV-2 variants but decreases it in SARS-CoV-1, illustrating differential molecular adaptation influencing receptor usage.

Virus
Host
Not specified
Location
Not specified
Supporting text

ACE2 binding is highly evolvable—for many sarbecovirus receptor-binding domains, there are single amino-acid mutations that enable binding to new ACE2 orthologues. However, the effects of individual mutations can differ considerably between viruses, as shown by the N501Y mutation, which enhances the human ACE2-binding affinity of several SARS-CoV-2 variants of concern but substantially decreases it for SARS-CoV-1.

Genes or proteins
spike; receptor-binding domain
Receptors
ACE2
Mutations
N501Y
Mechanism types
receptor_binding; host_range; molecular_adaptation
1 records
Extraction confidence 1.00
Key finding

SARS-CoV-1, SARS-CoV-2, and other bat sarbecoviruses use ACE2 as a receptor, and ACE2 binding shows evolutionary variability and adaptability among sarbecoviruses.

Virus
Location
Not specified
Supporting text

Both of these sarbecoviruses, SARS-CoV-1 and SARS-CoV-2, engage ACE2 through the spike receptor-binding domain. ACE2 binding is an ancestral trait of sarbecovirus receptor-binding domains that has subsequently been lost in some clades. Bat sarbecoviruses from outside Asia can bind to ACE2.

Method
high-throughput assays
Receptors
ACE2