FIG 4.

Impact of CP treatment on viral replication and evolution. (A) Comparison of allele frequencies determined using amplicon (ARTIC) and metagenomic sequencing (mNGS) methods. The square of the Pearson correlation coefficient values are shown. (B) Impact of treatment on viral sequence nucleotide diversity in nasal lavages and tracheal aspirates was assessed by ARTIC for comparison with the virus stock used for inoculation. A box plot of pairwise nucleotide diversity shows the median and the 1st and 3rd quartiles. (C) Impact of treatment on viral allele frequencies was assessed in comparison to the virus stock. Asterisks indicate expansion of a H655Y substitution in the viral spike protein. (D) Heat map showing antibody cross-reactivity to other related viruses in the human plasma pools and in plasma samples from study animals treated with NP and CP.