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03/03/2020 nextstrain.org  2 min #169817

Genomic epidemiology of novel coronavirus (Hcov-19)

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This phylogeny shows evolutionary relationships of HCoV-19 viruses from the ongoing novel coronavirus COVID-19 pandemic. All samples are still closely related with few mutations relative to a common ancestor, suggesting a shared common ancestor some time in Nov-Dec 2019. This indicates an initial human infection in Nov-Dec 2019 followed by sustained human-to-human transmission leading to sampled infections.

Site numbering and genome structure uses  Wuhan-Hu-1/2019 as reference. The phylogeny is rooted relative to early samples from Wuhan. Temporal resolution assumes a nucleotide substitution rate of 5 × 10^-4 subs per site per year. Full details on bioinformatic processing can be found  here.

Phylogenetic context of nCoV in SARS-related betacoronaviruses can be seen  here.

We gratefully acknowledge the authors, originating and submitting laboratories of the genetic sequence and metadata made available through  GISAID on which this research is based. A full listing of all originating and submitting laboratories is available below. An attribution table is available by clicking on "Download Data" at the bottom of the page and then clicking on "Strain Metadata" in the resulting dialog box.

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