Figure 6.

Genomes of the evolved lineages with a duplication of NIb. Mutations were detected using NGS data of the evolved TEV-NIb₁-NIb₉ and TEV-NIb₂-NIb₉ lineages compared to their ancestral lineages. The wild-type TEV is given for comparative purposes. The names on the left identify lineages (e.g., 3WL1 is the final population of 3-week passages, lineage 1). No NGS data were available for TEV-NIb₁-NIb₉ 3WL1. Filled circles and open circles represent nonsynonymous and synonymous substitutions, respectively. Black substitutions occur in only one lineage, whereas color-coded substitutions are repeated in two or more lineages. Note that the mutations are present at different frequencies, as reported by SAMtools (>10%). Gray boxes indicate genomic deletions in the majority variant, as detected by Sanger sequencing technology.