Table 2.
Main results from different treetime experiments, including branch length and date estimates for selected viruses. Minimum and maximum dates correspond to treetime estimates of the dates of emergence of the lineage. In MERS‐CoV, values that could not be computed for partitions M, N and S are not shown. A complete version of this table is available in Appendix S1j
| Genus | Virus | Partition | Branch length | Min. date | Max. date | Earliest paper's date |
|---|---|---|---|---|---|---|
| AlphaCoV | HCoV‐229E | All | 0.277057 | 16‐May‐1979 | 14‐Nov‐2001 | 28‐Nov‐1966 |
| M | 0.387593 | 6‐Jul‐1969 | 15‐Jan‐1984 | |||
| N | 0.360389 | 18‐Mar‐1974 | 17‐Jun‐1977 | |||
| ORF1ab | 0.293851 | 1‐Jan‐1982 | 4‐Jan‐1990 | |||
| S | 0.01769 | 11‐Mar‐1971 | 11‐Mar‐1971 | |||
| AlphaCoV | HCoV‐NL63 | All | 0.214784 | 2‐Apr‐1983 | 1‐Jan‐2010 | 21‐Mar‐2004 |
| M | 0.300646 | 13‐Jul‐1983 | 17‐Dec‐1987 | |||
| N | 0.319683 | 11‐Aug‐1983 | 11‐Aug‐1983 | |||
| ORF1ab | 0.169852 | 28‐Feb‐1983 | 19‐Jan‐2000 | |||
| S | 0.469001 | 31‐Jul‐1983 | 31‐Jul‐1983 | |||
| BetaCoV | HCoV‐OC43 | All | 0.016838 | 7‐Oct‐1986 | 1‐Aug‐2014 | 1‐Dec‐1967 |
| M | 0.03109 | 0‐Jul‐1984 | 28‐Nov‐1984 | |||
| N | 0.012209 | 4‐Nov‐1984 | 28‐Nov‐1984 | |||
| ORF1ab | 0.014887 | 1‐Oct‐1984 | 9‐Sep‐1998 | |||
| S | 0.02301 | 3‐Sep‐1984 | 23‐Sep‐1984 | |||
| BetaCoV | HECV‐4408 | All | 0.005943 | 1‐Jan‐1989 | 19‐Jan‐2014 | 28‐Jan‐1994 |
| M | 0.004738 | 8‐Jan‐1988 | 27‐Jun‐1988 | |||
| N | 0.003355 | 1‐Jan‐1988 | 1‐Jan‐1988 | |||
| ORF1ab | 0.005562 | 1‐Jan‐1988 | 2‐Jun‐2000 | |||
| S | 0.007408 | 1‐Jan‐1988 | 1‐Jan‐1988 | |||
| BetaCoV | SARS‐CoV | All | 0.028383 | 15‐Jan‐2010 | 24‐Feb‐2019 | 15‐May‐2003 |
| M | 0.026576 | 5‐Apr‐2003 | 20‐Apr‐2003 | |||
| N | 0.010167 | 20‐Apr‐2003 | 20‐Apr‐2003 | |||
| ORF1ab | 0.02828 | 13‐Apr‐2003 | 13‐Apr‐2003 | |||
| S | 0.032441 | 9‐Apr‐2003 | 9‐Apr‐2003 | |||
| BetaCoV | HCoV‐HKU1 | All | 0.294901 | 20‐Jul‐2003 | 15‐Jan‐2016 | 3‐Sep‐2004 |
| M | 0.422428 | 14‐Nov‐2002 | 19‐Apr‐2004 | |||
| N | 0.348589 | 12‐Sep‐2004 | 15‐Oct‐2004 | |||
| ORF1ab | 0.287167 | 28‐Nov‐2004 | 28‐Nov‐2004 | |||
| S | 0.256345 | 3‐Nov‐1998 | 3‐Nov‐1998 | |||
| BetaCoV | MERS‐CoV | All | 0.000394 | 28‐Mar‐2012 | 23‐Apr‐2012 | 17‐Oct‐2012 |
| ORF1ab | 0.000485 | 28‐Mar‐2012 | 28‐Mar‐2012 | |||
| BetaCoV | SARS‐CoV‐2 | All | 0.021728 | 21‐Dec‐2019 | 24‐Dec‐2019 | 23‐Jan‐2020 |
| M | 0.025206 | 28‐Sep‐2019 | 24‐Dec‐2019 | |||
| N | 0.020273 | 24‐Dec‐2019 | 24‐Dec‐2019 | |||
| ORF1ab | 0.017981 | 17‐Dec‐2019 | 17‐Dec‐2019 | |||
| S | 0.037718 | 24‐Dec‐2019 | 24‐Dec‐2019 |