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Reconstructing the Dynamics of HIV Evolution within Hosts from Serial Deep Sequence Data

Figure 4

Mutations within the V3 loop comprising the predominant pathway for each subject, stratified by time of emergence.

The MARCS V3 sequence reconstructed at the MRCA of the maximum credibility tree is shown at the top of each plot. Residues highlighted in red correspond to mutations that arose in a CXCR4-using background (FPR3.5). The duration of HIV coreceptor evolution from to the first CXCR4-using ancestor is indicated in months alongside each plot (see text).

Figure 4