Natural mutations in the receptor binding domain of spike glycoprotein determine the reactivity of cross-neutralization between palm civet coronavirus and severe acute respiratory syndrome coronavirus.

Li Liu1 Qing Fang Fei Deng Hanzhong Wang Christopher E Yi Lei Ba Wenjie Yu Richard D Lin Taisheng Li Zhihong Hu David D Ho Linqi Zhang Zhiwei Chen
Affiliations 1 institutions
  1. Aaron Diamond AIDS Research Center, The Rockefeller University, New York, NY 10016, USA.

Abstract

The severe acute respiratory syndrome (SARS) outbreak of 2002 and 2003 occurred as a result of zoonotic transmission. Coronavirus (CoV) found in naturally infected palm civet (civet-CoV) represents the closest genetic relative to SARS-CoV, but the degree and the determinants of cross-neutralization among these viruses remain to be investigated. Studies indicate that the receptor binding domain (RBD) of the SARS-CoV spike (S) glycoprotein contains major determinants for viral entry and neutralization. We aim to characterize the impact of natural mutations within the RBDs of civet-CoVs on viral entry and cross-neutralization. In this study, the S glycoprotein genes were recovered from naturally infected civets in central China (Hubei province), extending the geographic distribution of civet-CoV beyond the southeastern province of Guangdong. Moreover, pseudoviruses generated in our laboratory with four civet S genes, each with a distinct RBD, infected cells expressing human receptor angiotensin-converting enzyme 2, but with 90 to 95% less efficiency compared to that of SARS-CoV. These four civet S genes were also constructed as DNA vaccines to immunize mice. Immunized sera elicited against most civet S glycoproteins displayed potent neutralizing activities against autologous viruses but were much less efficient (50% inhibitory concentration, 20- to 40-fold) at neutralizing SARS-CoV and vice versa. Convalescence-phase sera from humans were similarly ineffective against the dominant civet pseudovirus. Our findings suggest that the design of SARS vaccine should consider not only preventing the reemergence of SARS-CoV but also providing cross-protection, thus interrupting zoonotic transmission of a group of genetically divergent civet CoVs of broad geographic origin.

Supporting text Virus Host Location
Phylogeny 805 Base Sequence 52 China 229 Cluster Analysis 31 Cross Reactions 21 Membrane Glycoproteins 26 Molecular Sequence Data 160 Mutation 209 Neutralization Tests 31 Protein Structure, Tertiary 29 Reverse Transcriptase Polymerase Chain Reaction 35 Sequence Analysis, DNA 113 Severe acute respiratory syndrome-related coronavirus 78 Spike Glycoprotein, Coronavirus 274 Viral Envelope Proteins 60

Evidence records

3 total
Zoonotic Surveillance
1 records · 1 evidence types
Evidence type
1 records
OVE401
Key finding

S glycoprotein genes of civet-CoV were recovered from naturally infected palm civets in Hubei province, indicating detection of civet-CoV genetic material beyond Guangdong.

Virus
Host
Location
Supporting text

In this study, the S glycoprotein genes were recovered from naturally infected civets in central China (Hubei province), extending the geographic distribution of civet-CoV beyond the southeastern province of Guangdong.

Method
gene recovery | molecular detection
Sample type
infected civet tissue
Geographic raw
Hubei province | Guangdong
Country inferred
CHN
Experimental Infection
1 records · 1 evidence types
Evidence type
1 records
OVE402
Key finding

Pseudoviruses carrying spike glycoproteins from civet coronaviruses were able to infect human ACE2-expressing cells, though with 90–95% lower efficiency than SARS-CoV.

Virus
Host
Location
Not specified
Supporting text

Pseudoviruses generated in our laboratory with four civet S genes, each with a distinct RBD, infected cells expressing human receptor angiotensin-converting enzyme 2, but with 90 to 95% less efficiency compared to that of SARS-CoV.

Method
pseudovirus generation | cell infection assay | ACE2 receptor expression assay
Experimental system
pseudovirus infection assay using ACE2-expressing cell culture
Functional Mechanism
1 records · 1 evidence types
Evidence type
1 records
OVE404
Key finding

Natural mutations in the spike receptor binding domain of civet coronavirus altered receptor-mediated entry and cross-neutralization efficiency compared with SARS-CoV.

Virus
Host
Not specified
Location
Not specified
Supporting text

Pseudoviruses generated with four civet S genes, each with a distinct RBD, infected cells expressing human angiotensin-converting enzyme 2, but with 90 to 95% less efficiency compared to that of SARS-CoV. Natural mutations within the RBDs of civet-CoVs affected viral entry and cross-neutralization.

Genes or proteins
spike glycoprotein | receptor binding domain
Receptors
angiotensin-converting enzyme 2
Mechanism types
receptor binding | host-range expansion | transmission fitness