Extensive C->U transition biases in the genomes of a wide range of mammalian RNA viruses; potential associations with transcriptional mutations, damage- or host-mediated editing of viral RNA
Fig 7
Distribution of association index values in virus datasets.
Frequency distributions of AI values at variable sites in alignments of representative viruses showing unbiased (left) or elevated (right) C->U/U->C transition asymmetries and with comparable overall sequence divergence (MPD values listed in Table 1). Histograms were sub-divided based on their Shannon entropy range (see key for colour coding; minimally variable sites (Shannon entropy < 0.3) were excluded). Insets show the corresponding tree topologies for each virus analysed, for large datasets (HCV, EV-A71; DENV1), trees based on randomly selected representative sequences are shown for clarity. Phylogenetic trees drawn to scale are provided in S2 Fig.