Divergent populations of HIV-infected naïve and memory CD4+ T-cell clones in children on antiretroviral therapy

Mary Grace Katusiime; Victoria Neer; Shuang Guo; Sean C. Patro; Wenjie Wang; Brian Luke; Adam A. Capoferri; Xiaolin Wu; Anna M. Horner; Jason W. Rausch; Ann Chahroudi; Maud Mavigner; Mary F. Kearney

doi:10.1172/JCI188533

Divergent populations of HIV-infected naïve and memory CD4+ T-cell clones in children on antiretroviral therapy

Mary Grace Katusiime,¹ Victoria Neer,¹ Shuang Guo,² Sean C. Patro,² Wenjie Wang,² Brian Luke,³ Adam A. Capoferri,¹ Xiaolin Wu,² Anna M. Horner,⁴ Jason W. Rausch,¹ Ann Chahroudi,⁴ Maud Mavigner,⁴ and Mary F. Kearney¹

Published March 6, 2025 - More info

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Abstract

BACKGROUND. Naïve cells comprise 90% of the CD4+ T-cell population in neonates and exhibit distinct age-specific capacities for proliferation and activation. We hypothesized that HIV-infected naïve CD4+ T-cell populations in children on long-term antiretroviral therapy (ART) would thus be distinct from infected memory cells.

METHODS. Peripheral blood naïve and memory CD4+ T cells from 8 children with perinatal HIV on ART initiated at age 1.7-17 months were isolated by FACS. DNA was extracted from sorted cells and HIV proviruses counted, evaluated for intactness, and subjected to integration site analysis.

RESULTS. Naïve CD4+ T cells containing HIV proviruses were detected in children with 95% statistical confidence. A median of 4.7% of LTR-containing naïve CD4+ T cells also contained HIV genetic elements consistent with intactness. Full-length proviral sequencing confirmed intactness of one provirus. In the participant with the greatest level of naïve cell infection, ISA revealed infected expanded cell clones in both naïve and memory T cells with no common HIV integration sites detected between subsets. Divergent integration site profiles reflected differential gene expression patterns of naïve and memory T cells.

CONCLUSIONS. These results demonstrate that HIV persists in both naïve and memory CD4+ T cells that undergo clonal expansion and harbor intact proviruses, suggesting that infected memory T-cell clones do not frequently arise from naïve cell differentiation in children with perinatal HIV on long-term ART.

FUNDING. Center for Cancer Research, NCI and Office of AIDS Research funding to MFK, NCI FLEX funding to JWR. Children’s and Emory JFF pilot to MM.

Divergent populations of HIV-infected naïve and memory CD4+ T-cell clones in children on antiretroviral therapy

Mary Grace Katusiime,¹ Victoria Neer,¹ Shuang Guo,² Sean C. Patro,² Wenjie Wang,² Brian Luke,³ Adam A. Capoferri,¹ Xiaolin Wu,² Anna M. Horner,⁴ Jason W. Rausch,¹ Ann Chahroudi,⁴ Maud Mavigner,⁴ and Mary F. Kearney¹

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Divergent populations of HIV-infected naïve and memory CD4+ T-cell clones in children on antiretroviral therapy

Mary Grace Katusiime,1 Victoria Neer,1 Shuang Guo,2 Sean C. Patro,2 Wenjie Wang,2 Brian Luke,3 Adam A. Capoferri,1 Xiaolin Wu,2 Anna M. Horner,4 Jason W. Rausch,1 Ann Chahroudi,4 Maud Mavigner,4 and Mary F. Kearney1

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Mary Grace Katusiime,¹ Victoria Neer,¹ Shuang Guo,² Sean C. Patro,² Wenjie Wang,² Brian Luke,³ Adam A. Capoferri,¹ Xiaolin Wu,² Anna M. Horner,⁴ Jason W. Rausch,¹ Ann Chahroudi,⁴ Maud Mavigner,⁴ and Mary F. Kearney¹