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AIDS. 2007 Aug 20;21(13):1693-700.

Understanding the diversification of HIV-1 groups M and O.

Author information

1
Faculty of Life Sciences, University of Manchester, Oxford Road, Manchester, UK.

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 inter- and 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 well defined clades, the subtypes that characterize 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.

PMID:
17690566
DOI:
10.1097/QAD.0b013e32825eabd0
[Indexed for MEDLINE]

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