Evidence map›Paper›PMID 39881519›Full record

ArticleThe Journal of antimicrobial chemotherapy2025

Subtypes A1 and D, and recombinant HIV-1 natural polymorphisms associated with lenacapavir drug resistance in Uganda.

Daniel Omoding, Nicholas Musinguzi, Yap Boum, Conrad Muzoora, Simone Kigozi, Peter W Hunt, Jeffrey N Martin, David R Bangsberg, Jessica E Haberer, Mark J Siedner and 2 more

Abstract read
In one paragraph

Article in The Journal of antimicrobial chemotherapy, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.

0numbers the graph read from it
0cells of the map it votes in
5citing papers in PubMed
–field-weighted citation impact
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

5 citing papers in PubMed.

  1. Review
  2. Article
  3. Article
  4. Review
  5. Article
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

12 authors.

Daniel OmodingDepartment of Community Health, Mbarara University of Science and Technology, Mbarara, Uganda.ORCID 0000-0002-8800-5732
Nicholas MusinguziDepartment of Community Health, Mbarara University of Science and Technology, Mbarara, Uganda.
Yap BoumInstitut Pasteur de Bangui, Bangui, Central African Republic.
Conrad MuzooraDepartment of Community Health, Mbarara University of Science and Technology, Mbarara, Uganda.
Simone KigoziDepartment of Community Health, Mbarara University of Science and Technology, Mbarara, Uganda.
Peter W HuntDepartment of Medicine, University of California, San Francisco, CA, USA.
Jeffrey N MartinDepartment of Epidemiology and Biostatistics, University of California, San Francisco, CA, USA.
David R BangsbergCollege of Health Sciences, VinUniversity, Hanoi, Vietnam.
Jessica E HabererDivision of Infectious Diseases, Massachusetts General Hospital, Boston, USA.
Mark J SiednerDepartment of Community Health, Mbarara University of Science and Technology, Mbarara, Uganda.
Suzanne M McCluskeyDepartment of Community Health, Mbarara University of Science and Technology, Mbarara, Uganda.
Guinevere Q LeeDepartment of Medicine, Division of Infectious Diseases, Weill Cornell Medicine, New York, NY, USA.ORCID 0000-0002-9412-886X

Funding

Virology CoreP30AI027763 · NIAID · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI Monica Gandhi · 1988 to 2026
$93.6M
TB PREVENTION AND HIV IN THE HOMELESS--AN INTERVENTIONR01MH054907 · NIMH · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI BANGSBERG, DAVID ROY · 1995 to 2014
$20.7M
Characterization of Non-subtype B HIV-1 Reservoirs and its Association with Longitudinal Clinical OutcomesR01AI162221 · NIAID · WEILL MEDICAL COLL OF CORNELL UNIV · PI LEE, GUINEVERE · 2021 to 2025
$2.1M
Virologic and pharmacologic determinants of dolutegravir failure in East AfricaK23AI143470 · NIAID · MASSACHUSETTS GENERAL HOSPITAL · PI MCCLUSKEY, SUZANNE · 2019 to 2023
$1.0M
Insights into the dynamics of clonal expansion of genome-intact proviruses by examining longitudinal evolution of HIV proviral DNA compositionsR21AI150398 · NIAID · WEILL MEDICAL COLL OF CORNELL UNIV · PI LEE, GUINEVERE · 2020 to 2021
$466k
National Institute of Health (NIH) R01 MH054907 (D.R.B.)NIAID NIH HHS K23 AI143470NIAID NIH HHS P30 AI027763NIAID NIH HHS R01 AI162221NIAID NIH HHS R21 AI150398NIMH NIH HHS R01 MH054907
6 · The paper itself

Abstract

backgroundLenacapavir, a novel HIV-1 capsid inhibitor, shows promise for treating MDR HIV-1, as well as for pre-exposure prophylaxis (PrEP) in prevention of HIV infection. Its unique mechanism and lack of cross-resistance with other antiretroviral classes make lenacapavir a significant addition to HIV therapy. The clinical trials CALIBRATE and CAPELLA have demonstrated high viral suppression rates in both ART-naive individuals and individuals with MDR HIV-1. Lenacapavir-associated resistance mutations, such as M66I and Q67H, rarely seen as natural polymorphisms in lenacapavir-naive populations, are predominantly studied in subtype B HIV-1.

objectivesOur study aimed to investigate the prevalence of lenacapavir resistance-associated mutations in HIV-1 subtypes A1 and D in a cohort of individuals living with HIV-1 from southwestern Uganda.

methodsUtilizing plasma samples from ART-naive adults living in Uganda, HIV-1 Gag p24 (capsid) sequences were analysed for lenacapavir resistance mutations.

resultsAmong 546 lenacapavir-naive participants, no major lenacapavir resistance-associated mutations were found. Minor mutations were present in 1.6% of participants, with T107A being the most common. Longitudinal data indicated the persistence of T107A for at least 3 years post-ART initiation in one participant. Phylogenetic analysis indicated individuals carrying T107A were found independently in distinct locations within the tree, suggesting that T107A might have arisen from multiple distinct base substitution events. Shannon entropy analysis showed high variability in certain capsid sites, but none overlapped with known lenacapavir resistance sites.

conclusionsThese findings suggest a low prevalence of naturally occurring lenacapavir resistance mutations in Uganda, supporting lenacapavir's potential efficacy in this region.

Indexed as

Anti-HIV AgentsDrug Resistance, ViralGenotypeHIV-1HIV InfectionsPolymorphism, GeneticAcetamidesAdultFemaleHumansIndazolesMaleMiddle AgedMutation, MissenseSequence Analysis, DNAUgandaAcetamidesAnti-HIV AgentsIndazoleslenacapavir

Identifiers

PMID39881519
PMCPMC11962371

What Socratic holds

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LicenceCC BY-NC
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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 Socratic graph.