The Diversification of HIV - 1 : a comparison of groups O and M Results

  • John Archer
  • Published 2011

Abstract

Objective: To quantify the similarity (or lack of) between the phylogenetic substructure of HIV-1 groups O and M. Methods: Two phylogenetic tree statistics the subtype diversity ratio*, SDR, and the subtype diversity variance**, SDV, were used in conjunction with bootstrap replicates on gag, pol and env sequence alignments of group O and M strains. Randomly generated phylogenetic trees were used as a control. Results: We show that as expected the established global-group M subtypes have a high degree of phylogenetic symmetry in relation to each other in terms of interand intra-subtype diversification. They are significantly different from the substructure present amongst the random trees. To the contrary the group O diversification does not display this highly symmetrical substructure and is not significantly different from the substructure present on randomly generated trees. Phylogenies comprised of group M strains from the epicentre of the HIV/AIDS pandemic, the Democratic Republic of Congo (DRC), exhibit a substructure more similar to group O than to global-group M. Conclusions: The substructure present within groups O and M is quantifiably different. The welldefined clades, the subtypes that characterize the group M diversification, are not present in group O or amongst group M strains from the DRC. The group M subtypes are thus unique and a signature of pandemic HIV-1. Abstract

Cite this paper

@inproceedings{Archer2011TheDO, title={The Diversification of HIV - 1 : a comparison of groups O and M Results}, author={John Archer}, year={2011} }