Evidence map›Paper›PMID 31776265›Full record

ArticleJournal of virology2020

Intact HIV Proviruses Persist in Children Seven to Nine Years after Initiation of Antiretroviral Therapy in the First Year of Life.

Mary Grace Katusiime, Elias K Halvas, Imogen Wright, Kevin Joseph, Michael J Bale, Bronwyn Kirby-McCullough, Susan Engelbrecht, Wei Shao, Wei-Shau Hu, Mark F Cotton and 3 more

Open access · greenAbstract read
In one paragraph

Article in Journal of virology, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
25citing papers in PubMed, 1 pooled it
2.4field-weighted citation impact, top 10% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

25 citing papers in PubMed, 1 synthesis or guideline pooled it, 33 citations in OpenAlex.

  1. Pooled it
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  10. HIV-1 reservoir evolution in infants infected with clade C from Mozambique.International journal of infectious diseases : IJID : official publication of the International Society for Infectious Diseases · 2023
    Article
  11. Article
  12. Review
  13. Article
  14. Significance of initiating antiretroviral therapy in the early stage of HIV infection.Zhejiang da xue xue bao. Yi xue ban = Journal of Zhejiang University. Medical sciences · 2022
    Article
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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

13 authors at 6 institutions in 2 countries.

Mary Grace KatusiimeDivision of Medical Virology, Stellenbosch University and National Health Laboratory Service Tygerberg, Cape Town, South Africa marygracekatusiime@gmail.com guvz@sun.ac.za.ORCID 0000-0002-0468-0600
Elias K HalvasDivision of Infectious Diseases, Department of Medicine, University of Pittsburgh School of Medicine, Pittsburgh, Pennsylvania, USA.
Imogen WrightSouth African National Bioinformatics Institute, University of the Western Cape, Cape Town, South Africa.
Kevin JosephDivision of Infectious Diseases, Department of Medicine, University of Pittsburgh School of Medicine, Pittsburgh, Pennsylvania, USA.
Michael J BaleHIV Dynamics and Replication Program, National Cancer Institute-Frederick, NIH, Frederick, Maryland, USA.
Bronwyn Kirby-McCulloughInstitute for Microbial Biotechnology and Metagenomics, University of Western Cape, Cape Town, South Africa.
Susan EngelbrechtDivision of Medical Virology, Stellenbosch University and National Health Laboratory Service Tygerberg, Cape Town, South Africa.ORCID 0000-0002-1318-5994
Wei ShaoHIV Dynamics and Replication Program, National Cancer Institute-Frederick, NIH, Frederick, Maryland, USA.
Wei-Shau HuHIV Dynamics and Replication Program, National Cancer Institute-Frederick, NIH, Frederick, Maryland, USA.
Mark F CottonDepartment of Pediatrics and Child Health, Tygerberg Children's Hospital and Family Clinical Research Unit, Stellenbosch University, Cape Town, South Africa.
John W MellorsDivision of Infectious Diseases, Department of Medicine, University of Pittsburgh School of Medicine, Pittsburgh, Pennsylvania, USA.
Mary F KearneyHIV Dynamics and Replication Program, National Cancer Institute-Frederick, NIH, Frederick, Maryland, USA.
Gert U van ZylDivision of Medical Virology, Stellenbosch University and National Health Laboratory Service Tygerberg, Cape Town, South Africa marygracekatusiime@gmail.com guvz@sun.ac.za.
Frederick National Laboratory for Cancer Research · USNational Health Laboratory Service · ZAUniversity of Pittsburgh · USUniversity of the Western Cape · ZALeidos (United States) · USStellenbosch University · ZA

Funding

The effect of ART on rates and transmission of TBU19AI053217 · NIAID · WITS HEALTH CONSORTIUM (PTY), LTD · PI VIOLARI, AVY · 2002 to 2011
$44.9M
Combined Immunologic Approaches to Cure HIV-1UM1AI126603 · NIAID · BETH ISRAEL DEACONESS MEDICAL CENTER · PI BAROUCH, DAN H., MELLORS, JOHN W · 2016 to 2020
$23.6M
Dynamics and Genetics of HIV Proviruses Before and During Antiretroviral TherapyZIABC011681 · NCI · DIVISION OF BASIC SCIENCES - NCI · PI KEARNEY, MARY · 2016 to 2025
$9.3M
Understanding Retroviral Reverse Transcription, Recombination, and ReplicationZIABC010504 · NCI · DIVISION OF BASIC SCIENCES - NCI · PI HU, WEI-SHAU · 2009 to 2025
$5.3M
Quantify the Fraction of Proviruses That Express HIV RNA to Better Understand Proviral Latency and Its ReversalZIABC011698 · NCI · DIVISION OF BASIC SCIENCES - NCI · PI KEARNEY, MARY · 2016 to 2025
$5.1M
Latent reservoir characterization and correlations with neurocognitive functioninR01MH105134 · NIMH · STELLENBOSCH UNIVERSITY · PI COTTON, MARK FREDRIC · 2014 to 2018
$3.1M
Characterizing HIV-1 diversity, evolution, and integration sites in children initiating cART in early infectionU01CA200441 · NCI · STELLENBOSCH UNIVERSITY · PI KEARNEY, MARY, VAN ZYL, GERT UVES · 2015 to 2019
$842k
CCR NIH HHS HHSN261200800001CNCI NIH HHS HHSN261200800001ENCI NIH HHS U01 CA200441NIAID NIH HHS U19 AI053217NIAID NIH HHS UM1 AI126603NIMH NIH HHS R01 MH105134
6 · The paper itself

Abstract

In adults starting antiretroviral therapy (ART) during acute infection, 2% of proviruses that persist on ART are genetically intact by sequence analysis. In contrast, a recent report in children treated early failed to detect sequence-intact proviruses. In another cohort of children treated early, we sought to detect and characterize proviral sequences after 6 to 9 years on suppressive ART. Peripheral blood mononuclear cells (PBMC) from perinatally infected children from the Children with HIV Early antiRetroviral (CHER) study were analyzed. Nearly full-length proviral amplification and sequencing (NFL-PAS) were performed at one time point after 6 to 9 years on ART. Amplicons with large internal deletions were excluded (<9 kb). All amplicons of ≥9 kb were sequenced and analyzed through a bioinformatic pipeline to detect indels, frameshifts, or hypermutations that would render them defective. In eight children who started ART at a median age of 5.4 months (range, 2.0 to 11.1 months), 733 single NFL-PAS amplicons were generated. Of these, 534 (72.9%) had large internal deletions, 174 (23.7%) had hypermutations, 15 (1.4%) had small internal deletions, 3 (1.0%) had deletions in the packaging signal/major splice donor site, and 7 (1.0%) were sequence intact. These 7 intact sequences were from three children who initiated ART after 2.3 months of age, one of whom had two identical intact sequences, suggestive of a cell clone harboring a replication-competent provirus. No intact proviruses were detected in four children who initiated ART before 2.3 months of age. Rare, intact proviruses can be detected in children who initiate ART after 2.3 months of age and are probably, as in adults, maintained by clonal expansion of cells infected before ART initiation.

Indexed as

Anti-Retroviral AgentsAntiretroviral Therapy, Highly ActiveCD4-Positive T-LymphocytesChildCohort StudiesDNA, ViralFemaleHIV-1HIV InfectionsHumansLeukocytes, MononuclearMaleProvirusesSequence Analysis, DNASouth AfricaViral LoadAnti-Retroviral AgentsDNA, ViralHIV cureHIV early ART childrenHIV full-length sequencingHIV intact provirusHIV persistenceHIV persistence childrenHIV proviral landscapeHIV reservoirHIV reservoir decayhuman immunodeficiency virus

Identifiers

PMID31776265
PMCPMC6997763
OpenAlexW2990309914

What OpenQuestion holds

Textmetadata
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.