Extended Data Fig. 3: Whole genome phylogeny of HeV-g1. | Nature Microbiology

Extended Data Fig. 3: Whole genome phylogeny of HeV-g1.

From: Spatio-temporal dynamics of Hendra virus in Australia reveal stable maintenance of diverse viral clades among Pteropus bats

Extended Data Fig. 3: Whole genome phylogeny of HeV-g1.

Of the 73 genomes used in the phylogeny, 57 were newly generated in this study. The alignments were built with MAFFT (FFT-NS-1 algorithm59, with the best model for distance estimates (TIM + F + I) identified with the ModelFinder function60 as the one with the lowest Bayesian information criterion (BIC). Maximum likelihood phylogenetic tree was constructed using IG-TREE261 and branch support was assessed using both ultrafast bootstrap approximation (ufBoot, 1000 replicates)62 and SH-like approximate likelihood ratio test (SH-aLRT). The tree was visualized in FigTree (http://tree.bio.ed.ac.uk/software/figtree/), and midpoint rooted for purposes of clarity. Only bootstrap support values greater of 69 are shown. Bars indicate nucleotide substitutions per site. Greyed tips represent sequences obtained from GenBank.

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