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Long-term remission despite clonal expansion of replication-competent HIV-1 isolates
Rebecca T. Veenhuis, Abena K. Kwaa, Caroline C. Garliss, Rachel Latanich, Maria Salgado, Christopher W. Pohlmeyer, Christopher L. Nobles, John Gregg, Eileen P. Scully, Justin R. Bailey, Frederic D. Bushman, Joel N. Blankson
Rebecca T. Veenhuis, Abena K. Kwaa, Caroline C. Garliss, Rachel Latanich, Maria Salgado, Christopher W. Pohlmeyer, Christopher L. Nobles, John Gregg, Eileen P. Scully, Justin R. Bailey, Frederic D. Bushman, Joel N. Blankson
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Research Article AIDS/HIV

Long-term remission despite clonal expansion of replication-competent HIV-1 isolates

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Abstract

Clonal expansion of T cells harboring replication-competent virus has recently been demonstrated in patients on suppressive antiretroviral therapy (ART) regimens. However, there has not been direct evidence of this phenomenon in settings of natural control, including in posttreatment controllers who maintain control of viral replication after treatment when ART is discontinued. We present a case of an individual who has had undetectable viral loads for more than 15 years following the cessation of ART. Using near-full-genome sequence analysis, we demonstrate that 9 of 12 replication-competent isolates cultured from this subject were identical and that this identity was maintained 6 months later. A similar pattern of replication-competent virus clonality was seen in a treatment-naive HLA-B*57 elite controller. In both cases, we show that CD8+ T cells are capable of suppressing the replication of the clonally expanded viruses in vitro. Our data suggest that, while clonal expansion of replication-competent virus can present a barrier to viral eradication, these viral isolates remain susceptible to HIV-specific immune responses and can be controlled in patients with long-term suppression of viral replication.

Authors

Rebecca T. Veenhuis, Abena K. Kwaa, Caroline C. Garliss, Rachel Latanich, Maria Salgado, Christopher W. Pohlmeyer, Christopher L. Nobles, John Gregg, Eileen P. Scully, Justin R. Bailey, Frederic D. Bushman, Joel N. Blankson

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Figure 4

Replication of clonal viruses can be inhibited by CD8+ T cells.

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Replication of clonal viruses can be inhibited by CD8+ T cells.
(A) Hete...
(A) Heterologous suppression of pNL4.3-deltaENV-GFP virus by unstimulated CD8+ T cells from ES24 and Pt169 at different ratios, tested in triplicate. (B) Suppression of clonal virus by unstimulated (UNS) or peptide-stimulated (STIM) CD8+ T cells from ES24, Pt169, and CP31, tested in triplicate. Pt169 CD4+ T cells were infected with clonal virus and cocultured with STIM CD8+ T cells. Coculture conditions were carried out in the presence of an isotype control, a MHC I–blocking antibody (w6/32), or in a Transwell. (C) The percentage of infected CD4+ T cells that remain after 1 day of coculture with STIM CD8+ T cells was analyzed by flow cytometry for Gag. Each symbol represents a replicate. (D) The percentage of elimination of infected cells was calculated for days 1 and 2 of coculture with STIM CD8+ T cells in the presence of isotype control or MHC I–blocking antibody, tested in triplicate. (E) Replication capacity of viral isolates from Pt169, CP31, and ES24 and laboratory strains BaL and IIIB. Representative experiment, repeated twice. (F) Downmodulation of surface HLA-A2 in primary CD4+ T cells infected by clonal isolates from Pt169, CP31, and ES24 and laboratory strains BaL and IIIB. (G) Calculated fold change in HLA-A2 MFI (n = 2). Height of bars indicates mean, and error bars show standard deviation. Statistical analysis was done using a 1-way ANOVA with Tukey’s multiple comparison test. *P < 0.05.

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