Science Advances

Supplementary Materials

The PDF file includes:

  • Supplementary Text
  • Fig. S1. Genome-wide assessment of homoplasic mutations presented as gene-wise parsimony scores as a function of θ and nucleotide diversity (π).
  • Fig. S2. Node descendants as a function of node age for clones harboring different groups of lldD2 mutations.
  • Fig. S3. Tip-randomization results.
  • Fig. S4. Root-to-tip analysis performed on a global down-sampled collection containing 269 genomes.
  • Fig. S5. Migration matrices inferred with DTA and BASTA visualized as heatmaps.
  • Fig. S6. Inferred migration of L4 over time from Europe to North and South America, as well as within the continents, using BASTA.
  • Fig. S7. Phylogeographic reconstruction of the RdRio family.
  • Fig. S8. Full temporal phylogeny of L4 including node age 95% HPD intervals.
  • Fig. S9. Histogram summarizing the emergence of lldD2 mutations over time.
  • References (6566)

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Other Supplementary Material for this manuscript includes the following:

  • Dataset S1 (Microsoft Excel format). List of strains.
  • Dataset S2 (.csv format). Results from population genomic inferences.
  • Dataset S3 (Microsoft Excel format). Location of lldD2 mutation emergence.

Files in this Data Supplement: