Fig. 4.

Analysis of NSP12 position 323 and spike position 614 through ARTIC-Illumina sequencing (A/C) and Illumina total RNAseq (B/D) from nasopharyngeal swabs taken longitudinally from infected cynomolgus (CX-X, n=6) and rhesus (RX-X, n=6) macaques. Data in this figure is from the ARTIC-Illumina approach to specifically amplify SARS-CoV-2 RNA (coverage filtered at 20×) and the Illumina total RNAseq approach without prior amplification (coverage filtered at 5×). The day post infection is shown for the animals. At position 323/614, a P/D is shown as light blue, an L/G as dark blue respectively, and green indicates other substitutions. The left-hand y-axis indicates the proportion of variation at the indicated position. (NHPs C= cynomolgus, R= rhesus macaque, CX-X/RX-X is the identity of the animal, with the experimental group C/RX and the animal number as -X)