ArticlePLoS pathogens2010
Phylogenetic approach reveals that virus genotype largely determines HIV set-point viral load.
Article in PLoS pathogens, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 80 papers, 1 of them a synthesis that pooled it.
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Who cites it
80 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Is the virulence of HIV changing? A meta-analysis of trends in prognostic markers of HIV disease progression and transmission.AIDS (London, England) · 2012Pooled it
- Partner characteristics predicting HIV-1 set point in sexually acquired HIV-1 among African seroconverters.AIDS research and human retroviruses · 2013Trial
- Generation and characterization of iPSC models from HIV-1-positive individuals with divergent clinical outcomes.Stem cell reports · 2026Article
- Phylogenetics and molecular evolution to understand and curb the HIV pandemic.Nature reviews. Microbiology · 2026Review
- Detectable effects of bacterial phylogeny on virulence but not phage efficacy in anISME communications · 2026Article
- Attenuation of HIV severity by slightly deleterious mutations can explain the long-term trajectory of virulence evolution.PLoS computational biology · 2025Article
- Longitudinal changes in the transcriptionally active and intact HIV reservoir after starting ART during acute infection.Journal of virology · 2025Article
- The genetic architecture of HIV-1 virulence.Virus evolution · 2025Article
- Reconciling founder variant multiplicity of HIV-1 infection with the rate of CD4Journal of the Royal Society, Interface · 2024Article
- Self-reported neurocognitive complaints in the Swiss HIV Cohort Study: a viral genome-wide association study.Brain communications · 2024Article
- Different diets and their effect on tuberculosis prevention in HIV patients.Journal of family medicine and primary care · 2022Article
- Inferring Phenotypic Trait Evolution on Large Trees With Many Incomplete Measurements.Journal of the American Statistical Association · 2022Article
- From HIV to COVID-19, Molecular mechanisms of pathogens' trade-off and persistence in the community, potential targets for new drug development.Bulletin of the National Research Centre · 2022Review
- Phylogenetic estimation of the viral fitness landscape of HIV-1 set-point viral load.Virus evolution · 2022Article
- Human Immunotypes Impose Selection on Viral Genotypes Through Viral Epitope Specificity.The Journal of infectious diseases · 2021Article
- Test-and-treat coverage and HIV virulence evolution among men who have sex with men.Virus evolution · 2021Article
- Few amino acid signatures distinguish HIV-1 subtype B pandemic and non-pandemic strains.PloS one · 2020Article
- Prevalence of Non-B HIV-1 Subtypes in North Italy and Analysis of Transmission Clusters Based on Sequence Data Analysis.Microorganisms · 2019Article
- Natural selection favoring more transmissible HIV detected in United States molecular transmission network.Nature communications · 2019Article
- Automatic generation of evolutionary hypotheses using mixed Gaussian phylogenetic models.Proceedings of the National Academy of Sciences of the United States of America · 2019Article
20 more citing papers are in PubMed but not listed here.
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19 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
HIV virulence, i.e. the time of progression to AIDS, varies greatly among patients. As for other rapidly evolving pathogens of humans, it is difficult to know if this variance is controlled by the genotype of the host or that of the virus because the transmission chain is usually unknown. We apply the phylogenetic comparative approach (PCA) to estimate the heritability of a trait from one infection to the next, which indicates the control of the virus genotype over this trait. The idea is to use viral RNA sequences obtained from patients infected by HIV-1 subtype B to build a phylogeny, which approximately reflects the transmission chain. Heritability is measured statistically as the propensity for patients close in the phylogeny to exhibit similar infection trait values. The approach reveals that up to half of the variance in set-point viral load, a trait associated with virulence, can be heritable. Our estimate is significant and robust to noise in the phylogeny. We also check for the consistency of our approach by showing that a trait related to drug resistance is almost entirely heritable. Finally, we show the importance of taking into account the transmission chain when estimating correlations between infection traits. The fact that HIV virulence is, at least partially, heritable from one infection to the next has clinical and epidemiological implications. The difference between earlier studies and ours comes from the quality of our dataset and from the power of the PCA, which can be applied to large datasets and accounts for within-host evolution. The PCA opens new perspectives for approaches linking clinical data and evolutionary biology because it can be extended to study other traits or other infectious diseases.
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