Fig. 3: Discrete trait mapping on time-scaled phylogeny of Cluster A. | Nature Communications

Fig. 3: Discrete trait mapping on time-scaled phylogeny of Cluster A.

From: Adaptation, spread and transmission of SARS-CoV-2 in farmed minks and associated humans in the Netherlands

Fig. 3: Discrete trait mapping on time-scaled phylogeny of Cluster A.The alternative text for this image may have been generated using AI.

Eight traits including host, farm ID (farm), province, the 4 unique sites in the spike protein with amino acid changes (L452M, Y453F, F486L and N501T) and the combinations of the 4 sites (combineAA) are mapped on the same MCC tree using the discrete trait model. The traits are plotted individually and for each tree, the branches and nodes are coloured by inferred ancestral traits. Samples which fell within mink clusters but not isolated from farms are highlighted in diamond (1 escaped mink and 1 un-associated human sequences). The outgroup containing human samples are cross labelled.

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