An outbreak of coronavirus disease 2019 (COVID-19) caused by the 2019 novel coronavirus (SARS-CoV-2) began in the city of Wuhan in China and has widely spread worldwide. Currently, it is vital to explore potential intermediate hosts of SARS-CoV-2 to control COVID-19 spread. Therefore, we reinvestigated published data from pangolin lung samples from which SARS-CoV-like CoVs were detected by Liu et al. [ 1]. We found genomic and evolutionary evidence of the occurrence of a SARS-CoV-2-like CoV (named Pangolin-CoV) in dead Malayan pangolins. Pangolin-CoV is 91.02% and 90.55% identical to SARS-CoV-2 and BatCoV RaTG13, respectively, at the whole-genome level. Aside from RaTG13, Pangolin-CoV is the most closely related CoV to SARS-CoV-2. The S1 protein of Pangolin-CoV is much more closely related to SARS-CoV-2 than to RaTG13. Five key amino acid residues involved in the interaction with human ACE2 are completely consistent between Pangolin-CoV and SARS-CoV-2, but four amino acid mutations are present in RaTG13. Both Pangolin-CoV and RaTG13 lost the putative furin recognition sequence motif at S1/S2 cleavage site that can be observed in the SARS-CoV-2. Conclusively, this study suggests that pangolin species are a natural reservoir of SARS-CoV-2-like CoVs.
Pangolin-CoV is 91.02% identical to SARS-CoV-2 at the whole-genome level
Pangolin-CoV is the second closest relative of SARS-CoV-2 behind RaTG13
Five key amino acids in the RBD are consistent between Pangolin-CoV and SARS-CoV-2
Only SARS-CoV-2 contains a potential cleavage site for furin proteases
The emerging SARS-coronavirus 2 (SARS-CoV-2) poses tremendous threat to human health. Zhang, Wu et al. show that like bats, pangolin species are a natural reservoir of SARS-CoV-2-like CoVs. This finding might help to find the intermediate host of SARS-CoV-2 for blocking a global coronavirus pandemic.