Figure 5

Identification and quantification of virally infected PBMC following natural DENV infection. (A) UMAP projection and population level-annotation of 9,565 sorted CD3⁺ and CD19⁺ PBMC analyzed by 5′ capture scRNAseq. Plot is an aggregated analysis of 3 timepoints from the same DENV-1 infected individual (fever days −2, −1, +180). (B) UMAP projection of sorted PBMCs captured by 5′capture scRNAseq indicating uninfected cells (blue) and cells containing > =1 DENV-1 mapped UMI (red). (C) Proportion of the identified PBMC populations from each analyzed time point containing > =1 UMI confidently mapped to the DENV-1 genome. (D) Heatmap representation of DENV-1 genomic sequence recovery in individual cells analyzed by 5′ capture scRNAseq from the fever day −2 PBMC sample. Infected cells are binned by population identity. (E) Heatmap representation of DENV-1 genomic sequence recovery in individual cells analyzed by 5′ capture scRNAseq from the fever day -1 PBMC sample. Infected cells are binned by population identity. (F) Aggregated DENV-1 genomic coverage and sequence depth of all in vivo infected samples as assessed by 5′ capture scRNAseq.