Dataset Information

Phylogenetic relatedness of circulating HIV-1C variants in Mochudi, Botswana.

ABSTRACT:

Background

Determining patterns of HIV transmission is increasingly important for the most efficient use of modern prevention interventions. HIV phylogeny can provide a better understanding of the mechanisms underlying HIV transmission networks in communities.

Methods

To reconstruct the structure and dynamics of a local HIV/AIDS epidemic, the phylogenetic relatedness of HIV-1 subtype C env sequences obtained from 785 HIV-infected community residents in the northeastern sector of Mochudi, Botswana, during 2010-2013 was estimated. The genotyping coverage was estimated at 44%. Clusters were defined based on relatedness of HIV-1C env sequences and bootstrap support of splits.

Results

The overall proportion of clustered HIV-1C env sequences was 19.1% (95% CI 17.5% to 20.8%). The proportion of clustered sequences from Mochudi was significantly higher than the proportion of non-Mochudi sequences that clustered, 27.0% vs. 14.7% (p?=?5.8E-12; Fisher exact test). The majority of clustered Mochudi sequences (90.1%; 95% CI 85.1% to 93.6%) were found in the Mochudi-unique clusters. None of the sequences from Mochudi clustered with any of the 1,244 non-Botswana HIV-1C sequences. At least 83 distinct HIV-1C variants, or chains of HIV transmission, in Mochudi were enumerated, and their sequence signatures were reconstructed. Seven of 20 genotyped seroconverters were found in 7 distinct clusters.

Conclusions

The study provides essential characteristics of the HIV transmission network in a community in Botswana, suggests the importance of high sampling coverage, and highlights the need for broad HIV genotyping to determine the spread of community-unique and community-mixed viral variants circulating in local epidemics. The proposed methodology of cluster analysis enumerates circulating HIV variants and can work well for surveillance of HIV transmission networks. HIV genotyping at the community level can help to optimize and balance HIV prevention strategies in trials and combined intervention packages.

SUBMITTER: Novitsky V

PROVIDER: S-EPMC3859477 | biostudies-literature | 2013

REPOSITORIES: biostudies-literature

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Publications

Phylogenetic relatedness of circulating HIV-1C variants in Mochudi, Botswana.

Novitsky Vladimir V Bussmann Hermann H Logan Andrew A Moyo Sikhulile S van Widenfelt Erik E Okui Lillian L Mmalane Mompati M Baca Jeannie J Buck Lauren L Phillips Eleanor E Tim David D McLane Mary Fran MF Lei Quanhong Q Wang Rui R Makhema Joseph J Lockman Shahin S DeGruttola Victor V Essex M M

PloS one 20131211 12

<h4>Background</h4>Determining patterns of HIV transmission is increasingly important for the most efficient use of modern prevention interventions. HIV phylogeny can provide a better understanding of the mechanisms underlying HIV transmission networks in communities.<h4>Methods</h4>To reconstruct the structure and dynamics of a local HIV/AIDS epidemic, the phylogenetic relatedness of HIV-1 subtype C env sequences obtained from 785 HIV-infected community residents in the northeastern sector of M ...[more]

PMID: 24349005

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Dataset Information

Phylogenetic relatedness of circulating HIV-1C variants in Mochudi, Botswana.

Background

Methods

Results

Conclusions

Publications

Phylogenetic relatedness of circulating HIV-1C variants in Mochudi, Botswana.

Similar Datasets

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