Comparative analysis estimates the relative frequencies of co-divergence and cross-species transmission within viral families

Geoghegan, Jemma L.; Duchêne, Sebastián; Holmes, Edward C.

Finally, to assist in visualization of these data, tanglegrams for each virus family were constructed using TreeMap v3.0 [47] . Lines between the trees connect the host (left) with its virus (right). We utilized the 'untangle' function, which rotates the branches of one tree, to minimize the number of crosses lines. If viruses and hosts have congruent topologies then the number of crossed lines, and hence cross-species transmission events, will obviously be reduced. required to obtain the maximum topological distance (black lines) for the Hepadnaviridae and the Parvoviridae phylogenies, which represent the minimum and maximum number of viruses in our data sets, respectively. The red, dashed line illustrates the PH85 distance of the non-randomized data, while the black, solid line is the PH85 distance after randomizing the data after n randomizations. (TIF) S1 Table. GenBank accession numbers for the virus and host genetic sequence data utilized here. (DOCX)