Evidence map›Paper›PMID 26575988›Full record

Observational studyPLoS medicine2015

Selection of an HLA-C*03:04-Restricted HIV-1 p24 Gag Sequence Variant Is Associated with Viral Escape from KIR2DL3+ Natural Killer Cells: Data from an Observational Cohort in South Africa.

Angelique Hölzemer, Christina F Thobakgale, Camilo A Jimenez Cruz, Wilfredo F Garcia-Beltran, Jonathan M Carlson, Nienke H van Teijlingen, Jaclyn K Mann, Manjeetha Jaggernath, Seung-gu Kang, Christian Körner and 12 more

Open access · goldAbstract readObservational Study
In one paragraph

Observational study in PLoS medicine, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 59 papers.

0numbers the graph read from it
0cells of the map it votes in
59citing papers in PubMed
4.8field-weighted citation impact, top 4% 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

59 citing papers in PubMed, 81 citations in OpenAlex.

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  13. A mutagenesis study of autoantigen optimization for potential T1D vaccine design.Proceedings of the National Academy of Sciences of the United States of America · 2023
    Article
  14. Risk Factors for Ebola Virus Persistence in Semen of Survivors in Liberia.Clinical infectious diseases : an official publication of the Infectious Diseases Society of America · 2023
    Article
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  19. Natural killer cells in antiviral immunity.Nature reviews. Immunology · 2022
    Review
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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

22 authors at 12 institutions in 5 countries.

Angelique HölzemerRagon Institute of MGH, MIT and Harvard, Cambridge, Massachusetts, United States of America.
Christina F ThobakgaleRagon Institute of MGH, MIT and Harvard, Cambridge, Massachusetts, United States of America.
Camilo A Jimenez CruzComputational Biology Center, IBM Thomas J. Watson Research Center, Yorktown Heights, New York, United States of America.
Wilfredo F Garcia-BeltranRagon Institute of MGH, MIT and Harvard, Cambridge, Massachusetts, United States of America.
Jonathan M CarlsonMicrosoft Research, Los Angeles, California, United States of America.
Nienke H van TeijlingenExperimental Immunology, Academic Medical Center, Amsterdam, The Netherlands.
Jaclyn K MannHIV Pathogenesis Programme, Doris Duke Medical Research Institute, KwaZulu-Natal Research Institute for Tuberculosis and HIV, Nelson R. Mandela School of Medicine, University of KwaZulu-Natal, Durban, South Africa.
Manjeetha JaggernathHIV Pathogenesis Programme, Doris Duke Medical Research Institute, KwaZulu-Natal Research Institute for Tuberculosis and HIV, Nelson R. Mandela School of Medicine, University of KwaZulu-Natal, Durban, South Africa.
Seung-gu KangComputational Biology Center, IBM Thomas J. Watson Research Center, Yorktown Heights, New York, United States of America.
Christian KörnerRagon Institute of MGH, MIT and Harvard, Cambridge, Massachusetts, United States of America.
Amy W ChungRagon Institute of MGH, MIT and Harvard, Cambridge, Massachusetts, United States of America.
Jamie L SchaferDepartment of Microbiology and Immunobiology, Harvard Medical School, Boston, Massachusetts, United States of America.
David T EvansDepartment of Microbiology and Immunobiology, Harvard Medical School, Boston, Massachusetts, United States of America.
Galit AlterRagon Institute of MGH, MIT and Harvard, Cambridge, Massachusetts, United States of America.
Bruce D WalkerRagon Institute of MGH, MIT and Harvard, Cambridge, Massachusetts, United States of America.
Philip J GoulderHIV Pathogenesis Programme, Doris Duke Medical Research Institute, KwaZulu-Natal Research Institute for Tuberculosis and HIV, Nelson R. Mandela School of Medicine, University of KwaZulu-Natal, Durban, South Africa.
Mary CarringtonRagon Institute of MGH, MIT and Harvard, Cambridge, Massachusetts, United States of America.
Pia HartmannFirst Department of Internal Medicine, Division of Infectious Diseases, University of Cologne, Cologne, Germany.
Thomas PertelCenter for Neurologic Diseases, Brigham and Women's Hospital and Harvard Medical School, Boston, Massachusetts, United States of America.
Ruhong ZhouComputational Biology Center, IBM Thomas J. Watson Research Center, Yorktown Heights, New York, United States of America.
Thumbi Ndung'uRagon Institute of MGH, MIT and Harvard, Cambridge, Massachusetts, United States of America.
Marcus AltfeldRagon Institute of MGH, MIT and Harvard, Cambridge, Massachusetts, United States of America.
Ragon Institute of MGH, MIT and Harvard · USUniversity of KwaZulu-Natal · ZAIBM Research - Thomas J. Watson Research Center · USLeibniz Institute of Virology (LIV) · DEAcademic Medical Center · NLBrigham and Women's Hospital · USHarvard University · USLeidos (United States) · USMicrosoft (United States) · USUniversity Medical Center Hamburg-Eppendorf · DEUniversity of Cologne · DEUniversity of Wisconsin–Madison · US

Funding

The impact of HIV viral diversity and cellular immunity on HIV pathogenesisP30AI060354 · NIAID · HARVARD UNIVERSITY (MEDICAL SCHOOL) · PI ROBERT A. PARKER · 2004 to 2026
$94.4M
Medical Scientist Training ProgramT32GM007753 · NIGMS · HARVARD UNIVERSITY (MEDICAL SCHOOL) · PI WALENSKY, LOREN DAVID · 1985 to 2021
$50.0M
Effects of genetic polymorphism in MHC, KIR, and related loci on human diseaseZIABC010791 · NCI · DIVISION OF BASIC SCIENCES - NCI · PI CARRINGTON, MARY N. · 2009 to 2025
$18.2M
Sustained antibody delivery for durable suppression of immunodeficiency virus replicationR01AI121135 · NIAID · UNIVERSITY OF WISCONSIN-MADISON · PI David T Evans · 2015 to 2026
$6.9M
Optimizing CD8+ T-cell responses against C clade HIV infection in subSaharan AfriR01AI046995 · NIAID · UNIVERSITY OF OXFORD · PI GOULDER, PHILIP J · 2000 to 2014
$6.8M
Pathogenesis of Clade C HIV InfectionR01AI067073 · NIAID · MASSACHUSETTS GENERAL HOSPITAL · PI WALKER, BRUCE D · 2006 to 2010
$2.9M
KIR and MHC Class I Immunogenetics in SIV InfectionR01AI095098 · NIAID · UNIVERSITY OF WISCONSIN-MADISON · PI EVANS, DAVID T · 2012 to 2016
$2.7M
Lentiviral Resistance to TetherinR01AI098485 · NIAID · UNIVERSITY OF WISCONSIN-MADISON · PI EVANS, DAVID T · 2012 to 2016
$2.2M
Identifying the ligand for the activating NK cell receptor KIR3DS1 and its protective role in HIV-1 disease progressionF31AI116366 · NIAID · HARVARD MEDICAL SCHOOL · PI GARCIA-BELTRAN, WILFREDO F · 2015 to 2018
$157k
CCR NIH HHS HHSN261200800001CHoward Hughes Medical InstituteIntramural NIH HHSNCI NIH HHS HHSN261200800001ENIAID NIH HHS F31 AI116366NIAID NIH HHS N0I-AI-15422NIAID NIH HHS P30 AI060354NIAID NIH HHS R01 AI046995NIAID NIH HHS R01 AI066031NIAID NIH HHS R01 AI067073NIAID NIH HHS R01 AI095098NIAID NIH HHS R01 AI098485NIAID NIH HHS R01 AI121135NIAID NIH HHS R0I-AI067073NIGMS NIH HHS T32 GM007753Wellcome Trust 102468/Z/13/ZWellcome Trust 104748
6 · The paper itself

Abstract

backgroundViruses can evade immune surveillance, but the underlying mechanisms are insufficiently understood. Here, we sought to understand the mechanisms by which natural killer (NK) cells recognize HIV-1-infected cells and how this virus can evade NK-cell-mediated immune pressure. METHODS AND

findingsTwo sequence mutations in p24 Gag associated with the presence of specific KIR/HLA combined genotypes were identified in HIV-1 clade C viruses from a large cohort of infected, untreated individuals in South Africa (n = 392), suggesting viral escape from KIR+ NK cells through sequence variations within HLA class I-presented epitopes. One sequence polymorphism at position 303 of p24 Gag (TGag303V), selected for in infected individuals with both KIR2DL3 and HLA-C*03:04, enabled significantly better binding of the inhibitory KIR2DL3 receptor to HLA-C*03:04-expressing cells presenting this variant epitope compared to the wild-type epitope (wild-type mean 18.01 ± 10.45 standard deviation [SD] and variant mean 44.67 ± 14.42 SD, p = 0.002). Furthermore, activation of primary KIR2DL3+ NK cells from healthy donors in response to HLA-C*03:04+ target cells presenting the variant epitope was significantly reduced in comparison to cells presenting the wild-type sequence (wild-type mean 0.78 ± 0.07 standard error of the mean [SEM] and variant mean 0.63 ± 0.07 SEM, p = 0.012). Structural modeling and surface plasmon resonance of KIR/peptide/HLA interactions in the context of the different viral sequence variants studied supported these results. Future studies will be needed to assess processing and antigen presentation of the investigated HIV-1 epitope in natural infection, and the consequences for viral control.

conclusionsThese data provide novel insights into how viruses can evade NK cell immunity through the selection of mutations in HLA-presented epitopes that enhance binding to inhibitory NK cell receptors. Better understanding of the mechanisms by which HIV-1 evades NK-cell-mediated immune pressure and the functional validation of a structural modeling approach will facilitate the development of novel targeted immune interventions to harness the antiviral activities of NK cells.

Indexed as

Genetic VariationImmune EvasionCohort StudiesEpitopesFemalegag Gene Products, Human Immunodeficiency VirusGenotypeHIV-1HIV Core Protein p24HIV InfectionsHLA-C AntigensHumansKiller Cells, NaturalMaleReceptors, KIR2DL3Reverse Transcriptase Polymerase Chain ReactionEpitopesgag Gene Products, Human Immunodeficiency VirusHIV Core Protein p24HLA-C AntigensReceptors, KIR2DL3RNA, Viral

Identifiers

PMID26575988
PMCPMC4648589
OpenAlexW2175125998

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Registered trials

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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.