Extended Data Fig. 4: Performance of the YFV500/V1 tiled-amplicon scheme and temporal signal in South American genotype I genomes.
From: Evolution and spillover dynamics of yellow fever at the forest–urban interface in Brazil
(a) Primer-binding heatmap across NP samples (n = 42). Each cell shows the number of reads containing a primer (or its reverse complement), normalised by library size (CPM, counts-per-million). Primers are ordered by amplicon number and orientation (L = left; R = right). Lower CPM indicates weaker binding/possible mismatches. (b) Root-to-tip genetic divergence against sampling year for South American genotype I genomes (r² = 0.80); n = 1,080 genomes from NCBI GenBank up until April 2023). Red = genomes generated in this study (n = 88); blue = genomes used to design the original YFV500/V1 primer set (up to April 2017); grey = other South American genotype I genomes.
