Fig. 5: Identity-by-state-based spatial patterns using AmpSeq and WGS data.
From: Microhaplotype deep sequencing assays to capture Plasmodium vivax infection lineages
The plot presents an unrooted neighbour-joining tree derived from a distance matrix on the microhaplotype calls using genotypes derived from microhaplotype and WGS data at the microhaplotype marker positions only. The neighbour-joining tree illustrates largely distinct clustering by country, except for neighboring Cambodia and Vietnam, and Bangladesh and Thailand. In countries with both WGS (triangles) and AmpSeq data (circles), no evidence of clustering by sequencing method is observed; although separation is observed in Indonesia, the WGS data from this region derives from Papua Province, whilst the AmpSeq data derives from Sumatra Province, located on different islands nearly 2500 Km apart. The plots were generated using data on 728 independent, monoclonal infections.
