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. 2022 Nov 4;14(12):evac161. doi: 10.1093/gbe/evac161

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© The Author(s) 2022. Published by Oxford University Press on behalf of Society for Molecular Biology and Evolution.

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.

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Fig. 1. — AlphaCoV and BetaCoV phylogenetic relationships are genome region-dependent. (A) Basic coronavirus genome organization with the 5′ ∼20 kb comprising the replicase gene that is proteolytically processed into up to 16 individual proteins. The 3′ 10 kb comprises structural and genus-specific accessory genes. (B) Maximum-likelihood (ML) phylogenetic tree of alpha and betaCoVs full-length RNA-dependent RNA-polymerase encoding region of Orf1ab. (C) ML phylogenetic tree of full-length spike genes from viruses in the species Betacoronavirus 1 (red) rooted with the distantly related betacoronavirus mouse hepatitis virus. (D) ML phylogenetic tree of spike genes of SARSr-CoVs, with SARS-CoV-2-like viruses further analyzed in the paper highlighted in blue. (E) ML phylogenetic tree of spike genes from SADSr-CoVs (magenta) rooted with the distantly related alphacoronavirus RnCov/Lucheng-19.