dc.contributor.author | Lee, Guinevere Q. | |
dc.contributor.author | Bangsberg, David R. | |
dc.contributor.author | Mo, Theresa | |
dc.contributor.author | Lachowski, Chris | |
dc.contributor.author | Brumme, Chanson J. | |
dc.contributor.author | Zhang, Wendy | |
dc.contributor.author | Lima, Viviane D. | |
dc.contributor.author | II, Yap Boum | |
dc.contributor.author | Mwebesa, Bosco Bwana | |
dc.contributor.author | Muzoora, Conrad | |
dc.contributor.author | Andia, Iren | |
dc.contributor.author | Mbalibulha, Yona | |
dc.contributor.author | Kembabazi, Annet | |
dc.contributor.author | Carroll, Ryan | |
dc.contributor.author | Siedner, Mark J. | |
dc.contributor.author | Haberer, Jessica E. | |
dc.contributor.author | Mocello, A. Rain | |
dc.contributor.author | Kigozi, Simone H. | |
dc.contributor.author | Hunt, Peter W. | |
dc.contributor.author | Martin, Jeffrey N. | |
dc.contributor.author | Harrigan, P. Richard | |
dc.date.accessioned | 2022-06-15T08:21:48Z | |
dc.date.available | 2022-06-15T08:21:48Z | |
dc.date.issued | 2017 | |
dc.identifier.citation | Lee, G. Q., Bangsberg, D. R., Mo, T., Lachowski, C., Brumme, C. J., Zhang, W., ... & Harrigan, P. R. (2017). Prevalence and clinical impacts of HIV-1 intersubtype recombinants in Uganda revealed by near-full-genome population and deep sequencing approaches.Lee, G. Q., Bangsberg, D. R., Mo, T., Lachowski, C., Brumme, C. J., Zhang, W., ... & Harrigan, P. R. (2017). Prevalence and clinical impacts of HIV-1 intersubtype recombinants in Uganda revealed by near-full-genome population and deep sequencing approaches. AIDS (London, England), 31(17), 2345. (London, England), 31(17), 2345. | en_US |
dc.identifier.uri | http://ir.must.ac.ug/xmlui/handle/123456789/2133 | |
dc.description.abstract | Objectives: To estimate prevalence, examine time trends, and test for clinical correlates and outcomes associated with HIV-1 intersubtype recombination under a full-genome sequencing context in a rural community in Mbarara, Uganda, where HIV-1 subtypes A1 and D co-circulate.
Methods: Near-full-genome HIV-1 Sanger sequence data was collected from plasma samples of 504 treatment-naïve individuals, who then received PI or NNRTI-containing regimens and were monitored for up to 7.5 years. Subtypes were inferred by Los Alamos RIP 3.0 and compared with Sanger/REGA and MiSeq/RIP. “Non-recombinants” and “recombinants” infections were compared in terms of pre-therapy viral load, CD4 count, post-therapy time to virologic suppression, virologic rebound, first CD4 rise above baseline and sustained CD4 recovery.
Results: Prevalence of intersubtype recombinants varied depending on the genomic region examined: gag (15%), prrt (11%), int (8%), vif (10%), vpr (2%), vpu (9%), GP120 (8%), GP41 (18%), and nef (4%). Of the 200 patients with near-full-genome data, prevalence of intersubtype recombination was 46%; the most frequently observed recombinant was A1-D (25%). Sanger/
REGA and MiSeq/RIP yielded generally consistent results. Phylogenetic tree revealed most recombinants did not share common ancestors. No temporal trend was observed (all p>0.1). Subsequent subtype switches were detected in 27 of 143 (19%) subjects with follow-up sequences. Non-recombinant versus recombinants infections were not significantly different in any pre- nor post-therapy clinical correlates examined (all p>0.2).
Conclusion: Intersubtype recombination was highly prevalent (46%) in Uganda if the entire HIV genome was considered, but was not associated with clinical correlates nor therapy outcomes. | en_US |
dc.description.sponsorship | Canadian Institutes of Health Research (CIHR), National Institutes of Health (NIH) Centers for AIDS Research (CFAR) Program, National Institute of Mental Health and National Institute on Alcohol Abuse and Alcoholism (R01 MH054907, P30 AI027763, U01 CA066529, UM1 CA181255, R21 AA014784). | en_US |
dc.language.iso | en_US | en_US |
dc.publisher | Lee, G. Q., Bangsberg, D. R., Mo, T., Lachowski, C., Brumme, C. J., Zhang, W., ... & Harrigan, P. R. (2017). Prevalence and clinical impacts of HIV-1 intersubtype recombinants in Uganda revealed by near-full-genome population and deep sequencing approaches. AIDS (London, England), 31(17), 2345. | en_US |
dc.subject | Uganda | en_US |
dc.subject | Africa | en_US |
dc.subject | Recombinants | en_US |
dc.subject | Non-B subtypes | en_US |
dc.subject | Full-genome sequencing | en_US |
dc.subject | Virologic outcomes | en_US |
dc.subject | Consequence | en_US |
dc.subject | HIV-1 | en_US |
dc.subject | Clinical outcomes | en_US |
dc.subject | Deep sequencing | en_US |
dc.title | Prevalence and Clinical Impacts of HIV-1 Intersubtype Recombinants in Uganda Revealed by Near-Full-Genome Population and Deep Sequencing Approaches | en_US |
dc.type | Article | en_US |