FIG. 2.

Phylogenetic origins of the major and minor parental regions of Rp3. ML phylogenies were constructed from the concatenated sequences of the essential ORFs of the major (A) and minor (B) parental regions of selected CoVs. For the purposes of display, the phylogenies were midpoint rooted. The taxa were annotated according to their accession numbers and host species—civets (C), humans (H), or bats (B)—and strain names. The numbers on the left of the nodes refer to the BMCMC posterior probabilities. The percentages of support for all other internal nodes within the two lineages were omitted for simplicity. The recombinant strain Rp3, the most recent common ancestor of Hu-SCoVs (MRCA-Hu), and the divergence event between Hu-SCoVs and HB-SLCoVs (DIV-Hu/HB) are indicated. The scale bars are in units of nucleotide substitutions per site.