TABLE 1.
Betacoronavirus (order Nidovirales, family Coronaviridae, subfamily Coronavirinae) nucleotide accessions used in this studya
| Subgenus species | No. of accessions | No. of complete genomes | Reference accession no. | Length (nt) |
|---|---|---|---|---|
| Embecovirus | ||||
| Bovine coronavirus | 1148 | 111 | AF220295.1 | 31,100 |
| Camel coronavirus HKU23 | 22 | 9 | MN514966.1 | 31,075 |
| Canine respiratory coronavirus | 60 | 3 | LR721664.1 | 31,190 |
| Equine coronavirus | 37 | 4 | EF446615.1 | 30,992 |
| Human coronavirus HKU1 | 416 | 48 | DQ415901.1 | 30,097 |
| Human coronavirus OC43 | 1386 | 178 | MN306053.1 | 30,818 |
| Murine coronavirus | 258 | 38 | AC_000192.1 | 31,526 |
| Porcine hemagglutinating encephalomyelitis | 92 | 13 | KY994645.1 | 30,684 |
| Rattus coronavirus HKU24 | 4 | 4 | NC_026011.1 | 31,249 |
| Hibecovirus | ||||
| Bat Hp-betacoronavirus Zhejiang2013 | 1 | 1 | NC_025217.1 | 31,491 |
| Merbecovirus | ||||
| Betacoronavirus erinaceus | 10 | 6 | KC545386.1 | 30,175 |
| Bat coronavirus HKU4 | 87 | 11 | EF065508.1 | 30,316 |
| Bat coronavirus HKU5 | 66 | 10 | MH002342.1 | 30,529 |
| MERS-CoV | 1351 | 572 | MG987420.1 | 30,484 |
| Nobecovirus | ||||
| Rousettus bat coronavirus HKU9-1 | 116 | 10 | EF065516.1 | 29,155 |
| Rousettus bat coronavirus GCCDC1 | 27 | 3 | NC_030886.1 | 30,161 |
| Sarbecovirus | ||||
| Bat coronavirus | 2 | 2 | GU190215 | 29,276 |
| Bat SARS coronavirus | 45 | 28 | MN996532.1 | 29,855 |
| Bat SARS-like coronavirus | 147 | 19 | KY417150.1 | 30,311 |
| SARS-CoV | 637 | 254 | MK062183.1 | 29,874 |
| SARS-CoV-2 | 2,379 | 2,315 | NC_045512.2 | 29,903 |
a
For each virus species, one annotated accession describing the full genome was used as a reference. Only accessions describing complete genomes were used for nucleotide variation analyses. Accessions were downloaded from NCBI on 6 April 2020. For SARS-CoV-2, additional accessions were downloaded on 13 May 2020.