Frequent intra-subtype recombination among HIV-1 circulating in Tanzania.
The study estimated the prevalence of HIV-1 intra-subtype recombinant variants among female bar and hotel workers in Tanzania. While intra-subtype recombination occurs in HIV-1, it is generally underestimated. HIV-1 env gp120 V1-C5 quasispecies from 45 subjects were generated by single-genome amplif...
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Public Library of Science (PLoS)
2013-01-01
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| Series: | PLoS ONE |
| Online Access: | https://doi.org/10.1371/journal.pone.0071131 |
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| author | Ireen E Kiwelu Vladimir Novitsky Lauren Margolin Jeannie Baca Rachel Manongi Noel Sam John Shao Mary F McLane Saidi H Kapiga M Essex |
| author_facet | Ireen E Kiwelu Vladimir Novitsky Lauren Margolin Jeannie Baca Rachel Manongi Noel Sam John Shao Mary F McLane Saidi H Kapiga M Essex |
| author_sort | Ireen E Kiwelu |
| collection | DOAJ |
| description | The study estimated the prevalence of HIV-1 intra-subtype recombinant variants among female bar and hotel workers in Tanzania. While intra-subtype recombination occurs in HIV-1, it is generally underestimated. HIV-1 env gp120 V1-C5 quasispecies from 45 subjects were generated by single-genome amplification and sequencing (median (IQR) of 38 (28-50) sequences per subject). Recombination analysis was performed using seven methods implemented within the recombination detection program version 3, RDP3. HIV-1 sequences were considered recombinant if recombination signals were detected by at least three methods with p-values of ≤0.05 after Bonferroni correction for multiple comparisons. HIV-1 in 38 (84%) subjects showed evidence for intra-subtype recombination including 22 with HIV-1 subtype A1, 13 with HIV-1 subtype C, and 3 with HIV-1 subtype D. The distribution of intra-patient recombination breakpoints suggested ongoing recombination and showed selective enrichment of recombinant variants in 23 (60%) subjects. The number of subjects with evidence of intra-subtype recombination increased from 29 (69%) to 36 (82%) over one year of follow-up, although the increase did not reach statistical significance. Adjustment for intra-subtype recombination is important for the analysis of multiplicity of HIV infection. This is the first report of high prevalence of intra-subtype recombination in the HIV/AIDS epidemic in Tanzania, a region where multiple HIV-1 subtypes co-circulate. HIV-1 intra-subtype recombination increases viral diversity and presents additional challenges for HIV-1 vaccine design. |
| format | Article |
| id | doaj-art-0d28343931e94e488a6e01897863d4ee |
| institution | Kabale University |
| issn | 1932-6203 |
| language | English |
| publishDate | 2013-01-01 |
| publisher | Public Library of Science (PLoS) |
| record_format | Article |
| series | PLoS ONE |
| spelling | doaj-art-0d28343931e94e488a6e01897863d4ee2025-08-20T03:46:24ZengPublic Library of Science (PLoS)PLoS ONE1932-62032013-01-0188e7113110.1371/journal.pone.0071131Frequent intra-subtype recombination among HIV-1 circulating in Tanzania.Ireen E KiweluVladimir NovitskyLauren MargolinJeannie BacaRachel ManongiNoel SamJohn ShaoMary F McLaneSaidi H KapigaM EssexThe study estimated the prevalence of HIV-1 intra-subtype recombinant variants among female bar and hotel workers in Tanzania. While intra-subtype recombination occurs in HIV-1, it is generally underestimated. HIV-1 env gp120 V1-C5 quasispecies from 45 subjects were generated by single-genome amplification and sequencing (median (IQR) of 38 (28-50) sequences per subject). Recombination analysis was performed using seven methods implemented within the recombination detection program version 3, RDP3. HIV-1 sequences were considered recombinant if recombination signals were detected by at least three methods with p-values of ≤0.05 after Bonferroni correction for multiple comparisons. HIV-1 in 38 (84%) subjects showed evidence for intra-subtype recombination including 22 with HIV-1 subtype A1, 13 with HIV-1 subtype C, and 3 with HIV-1 subtype D. The distribution of intra-patient recombination breakpoints suggested ongoing recombination and showed selective enrichment of recombinant variants in 23 (60%) subjects. The number of subjects with evidence of intra-subtype recombination increased from 29 (69%) to 36 (82%) over one year of follow-up, although the increase did not reach statistical significance. Adjustment for intra-subtype recombination is important for the analysis of multiplicity of HIV infection. This is the first report of high prevalence of intra-subtype recombination in the HIV/AIDS epidemic in Tanzania, a region where multiple HIV-1 subtypes co-circulate. HIV-1 intra-subtype recombination increases viral diversity and presents additional challenges for HIV-1 vaccine design.https://doi.org/10.1371/journal.pone.0071131 |
| spellingShingle | Ireen E Kiwelu Vladimir Novitsky Lauren Margolin Jeannie Baca Rachel Manongi Noel Sam John Shao Mary F McLane Saidi H Kapiga M Essex Frequent intra-subtype recombination among HIV-1 circulating in Tanzania. PLoS ONE |
| title | Frequent intra-subtype recombination among HIV-1 circulating in Tanzania. |
| title_full | Frequent intra-subtype recombination among HIV-1 circulating in Tanzania. |
| title_fullStr | Frequent intra-subtype recombination among HIV-1 circulating in Tanzania. |
| title_full_unstemmed | Frequent intra-subtype recombination among HIV-1 circulating in Tanzania. |
| title_short | Frequent intra-subtype recombination among HIV-1 circulating in Tanzania. |
| title_sort | frequent intra subtype recombination among hiv 1 circulating in tanzania |
| url | https://doi.org/10.1371/journal.pone.0071131 |
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