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. 2016 Jun 8;2(1):vew012. doi: 10.1093/ve/vew012

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© The Author 2016. Published by Oxford University Press.

This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com

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Figure 3. — ML phylogenetic trees for transmission pairs 9, 11, and 15. Blood plasma haplotypes from the source are indicated in red. Blood plasma haplotypes collected at baseline in the recipients are colored in green. Multiple and single founders are inferred based upon highlighter plots, tree topologies and viral diversity are indicated in red (multiple) and blue (single squared boxes. The scale bar represents a genetic distance of 0.01 for all pairs. The entire dataset of 30 pairs is proposed in Supplementary Figure S3.