A RNA-dependent RNA polymerase (RdRp) phylogeny indicates that RmYN02, RaTG13, and SARS-CoV-2 form a cluster separate from pangolin viruses. 

University of Michigan - Ann Arbor

- Full-length genome
- S protein genome
- Receptor-binding domain 
- RNA-dependent RNA polymerase

Phylogenetic analysis of RmYN02 and SARS-CoV-2

Zhou, H., Chen, X., Hu, T., Li, J., Song, H., Liu, Y., Wang, P., Liu, D., Yang, J., Holmes, E. C., Hughes, A. C., Bi, Y., & Shi, W. (2020). A Novel Bat Coronavirus Closely Related to SARS-CoV-2 Contains Natural Insertions at the S1/S2 Cleavage Site of the Spike Protein. Current biology : CB, 30(11), 2196–2203.e3. https://doi.org/10.1016/j.cub.2020.05.023

A Novel Bat Coronavirus Closely Related to SARS-CoV-2 Contains Natural Insertions at the S1/S2 Cleavage Site of the Spike Protein

The phylogenetic analysis shows that SARS-CoV-2 and RmYN02 are the most closely related in most of the genome, although a long branch length still separates the two viruses from each other. 

Phylogenetic analysis of RmYN02 and SARS-CoV-2 full-length genome

SARS-CoV-2 and RmYN02 are relatively distant from each other in the spike gene tree, with SARS-CoV-2 being more clustered with RaTG13.

Phylogenetic analysis of RmYN02 and SARS-CoV-2 S gene

In the receptor-binding domain (RBD) phylogeny, SARS-CoV-2 is more closely related to pangolin-CoV/GD than RmYN02.

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