Figure 5
Genetic heterogeneity revealed by deep-sequence analysis. Panel A: Distances between viral populations collected in hosts A1, A2, A3 and A5, obtained considering all validated mutations at frequencies above 0.5%. A2 presents a large heterogeneity, with the FLF samples being very different from all others. Conversely, A3 shows remarkably similar pattern to late samples, while the early probangs bear a larger similarity with the A2 samples. Samples in A5 are very similar to several late A3 samples. Panel B: Metric two-dimensional multidimensional scaling analysis of the distance matrix: the data formed the characteristic horseshoe pattern, sign of a latent order in the data.