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Literature detail

A novel bat coronavirus with a polybasic furin-like cleavage site.

Wentao Zhu1 Yuyuan Huang2 Jian Gong2 Lingzhi Dong2 Xiaojie Yu3 Haiyun Chen3 Dandan Li3 Libo Zhou3 Jing Yang4,5 Shan Lu4,6
Affiliations 6 institutions
  1. Department of Infectious Diseases and Clinical Microbiology, Beijing Institute of Respiratory Medicine and Beijing Chao-Yang Hospital, Capital Medical University, Beijing, 100020, China.
  2. State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Communicable Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing, 102206, China.
  3. Hainan Provincial Center for Disease Control and Prevention, Haikou, 570203, China.
  4. State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Communicable Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing, 102206, China
  5. Research Units of Discovery of Unknown Bacteria and Function, Chinese Academy of Medical Sciences, Beijing, 100730, China. Electronic address: [email protected].
  6. Research Units of Discovery of Unknown Bacteria and Function, Chinese Academy of Medical Sciences, Beijing, 100730, China. Electronic address: [email protected].
PMID 37141989 2023 Virol Sin eng ppublish
PubMed DOI Browse context

Article

Publication summary

The current pandemic of COVID-19 caused by a novel coronavirus, severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2), threatens human health around the world. Of particular concern is that bats are recognized as one of the most potential natural hosts of SARS-CoV-2; however, coronavirus ecology in bats is still nascent. Here, we performed a degenerate primer screening and next-generation sequencing analysis of 112 bats, collected from Hainan Province, China. Three coronaviruses, namely bat betacoronavirus (Bat CoV) CD35, Bat CoV CD36 and bat alphacoronavirus CD30 were identified. Bat CoV CD35 genome had 99.5% identity with Bat CoV CD36, both sharing the highest nucleotide identity with Bat Hp-betacoronavirus Zhejiang2013 (71.4%), followed by SARS-CoV-2 (54.0%). Phylogenetic analysis indicated that Bat CoV CD35 formed a distinct clade, and together with Bat Hp-betacoronavirus Zhejiang2013, was basal to the lineage of SARS-CoV-1 and SARS-CoV-2. Notably, Bat CoV CD35 harbored a canonical furin-like S1/S2 cleavage site that resembles the corresponding sites of SARS-CoV-2. The furin cleavage sites between CD35 and CD36 are identical. In addition, the receptor-binding domain of Bat CoV CD35 showed a highly similar structure to that of SARS-CoV-1 and SARS-CoV-2, especially in one binding loop. In conclusion, this study deepens our understanding of the diversity of coronaviruses and provides clues about the natural origin of the furin cleavage site of SARS-CoV-2.

Bat Betacoronavirus Cleavage site Coronavirus Furin SARS-CoV-2 Chiroptera COVID-19 Animals Furin Humans Phylogeny SARS-CoV-2 Spike Glycoprotein, Coronavirus spike protein, SARS-CoV-2

Structured evidence records

Evidence records

4 total
Genomic Evolution 1 records
Genomic Evolution Extraction confidence 0.90
Key finding

Bat CoV CD35 exhibits genomic and phylogenetic features closely related to SARS-CoV-1 and SARS-CoV-2, including a furin-like cleavage site, suggesting evolutionary continuity between bat and human coronaviruses.

Host
Chiroptera
Location
Not specified
Supporting text

Next-generation sequencing identified Bat CoV CD35 and CD36 from bats in Hainan, China; the Bat CoV CD35 genome shared 99.5% identity with CD36 and was basal to SARS-CoV-1 and SARS-CoV-2 in phylogenetic analysis. Bat CoV CD35 harbored a canonical furin-like S1/S2 cleavage site resembling that of SARS-CoV-2.

Genes or proteins
Spike; Receptor-binding domain; Furin-like S1/S2 cleavage site
Analysis methods
next-generation sequencing; phylogenetic analysis; comparative genomic analysis
Molecular Adaptation 1 records
Molecular Adaptation Extraction confidence 0.85
Key finding

Bat CoV CD35 contains a furin-like S1/S2 cleavage site and a receptor-binding domain closely similar to SARS-CoV-1 and SARS-CoV-2, suggesting molecular adaptation relevant to host range or pathogenicity.

Host
Not specified
Location
Not specified
Supporting text

Bat CoV CD35 harbored a canonical furin-like S1/S2 cleavage site that resembles the corresponding sites of SARS-CoV-2. In addition, the receptor-binding domain of Bat CoV CD35 showed a highly similar structure to that of SARS-CoV-1 and SARS-CoV-2, especially in one binding loop.

Genes or proteins
Spike glycoprotein; Receptor-binding domain
Mechanism types
receptor_binding; cell_entry; pathogenicity
Receptor Usage 1 records
Receptor Usage Extraction confidence 0.75
Key finding

Bat CoV CD35 has a receptor-binding domain closely resembling that of SARS-CoV-1 and SARS-CoV-2, indicating structural similarity in receptor interaction sites.

Host
Chiroptera
Location
Not specified
Supporting text

The receptor-binding domain of Bat CoV CD35 showed a highly similar structure to that of SARS-CoV-1 and SARS-CoV-2, especially in one binding loop.

Method
structural analysis
Zoonotic Surveillance 1 records
Zoonotic Surveillance Extraction confidence 0.95
Key finding

Surveillance of 112 bats in Hainan Province, China, identified three novel bat coronaviruses (Bat CoV CD35, CD36, and CD30) using degenerate primers and next-generation sequencing.

Host
Chiroptera
Location
China China
Supporting text

Here, we performed a degenerate primer screening and next-generation sequencing analysis of 112 bats, collected from Hainan Province, China. Three coronaviruses, namely bat betacoronavirus (Bat CoV) CD35, Bat CoV CD36 and bat alphacoronavirus CD30 were identified.

Method
degenerate primer screening; next-generation sequencing
Geographic raw
Hainan Province, China
Country inferred
China