Molecular dating and viral load growth rates suggested that the eclipse phase lasted about a week in HIV-1 infected adults in East Africa and Thailand

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dc.contributor.authorRolland, Morgane
dc.contributor.authorTovanabutra, Sodsai
dc.contributor.authorDearlove, Bethany
dc.contributor.authorLi, Yifan
dc.contributor.authorKibuuka, Hannah
dc.contributor.authorMaganga, Lucas
dc.contributor.authorMichael, Nelson L.
dc.contributor.authorRobb, Merlin L.
dc.date.accessioned2022-12-06T15:30:08Z
dc.date.available2022-12-06T15:30:08Z
dc.date.issued2020
dc.description.abstractMost HIV-1 infected individuals do not know their infection dates. Precise infection timing is crucial information for studies that document transmission networks or drug levels at infection. To improve infection timing, we used the prospective RV217 cohort where the window when plasma viremia becomes detectable is narrow: the last negative visit occurred a median of four days before the first detectable HIV-1 viremia with an RNA test, referred below as diagnosis. We sequenced 1,280 HIV-1 genomes from 39 participants at a median of 4, 32 and 170 days post-diagnosis. HIV-1 infections were dated by using sequencebased methods and a viral load regression method. Bayesian coalescent and viral load regression estimated that infections occurred a median of 6 days prior to diagnosis (IQR: 9–3 and 11–4 days prior, respectively). Poisson-Fitter, which analyzes the distribution of hamming distances among sequences, estimated a median of 7 days prior to diagnosis (IQR: 15–4 days) based on sequences sampled 4 days post-diagnosis, but it did not yield plausible results using sequences sampled at 32 days. Fourteen participants reported a high-risk exposure event at a median of 8 days prior to diagnosis (IQR: 12 to 6 days prior). These different methods concurred that HIV-1 infection occurred about a week before detectable viremia, corresponding to 20 days (IQR: 34–15 days) before peak viral load.en_US
dc.identifier.citationRolland M, Tovanabutra S, Dearlove B, Li Y, Owen CL, Lewitus E, et al. (2020) Molecular dating and viral load growth rates suggested that the eclipse phase lasted about a week in HIV-1 infected adults in East Africa and Thailand. PLoS Pathog 16(2): e1008179. https://doi.org/10.1371/ journal.ppat.1008179en_US
dc.identifier.urihttps://doi.org/10.1371/ journal.ppat.1008179
dc.identifier.urihttps://nru.uncst.go.ug/handle/123456789/6010
dc.language.isoenen_US
dc.publisherPLoS Pathogen_US
dc.subjectMolecular datingen_US
dc.subjectViral load growth ratesen_US
dc.subjectEclipse phaseen_US
dc.subjectHIV-1 infected adultsen_US
dc.subjectEast Africa and Thailanden_US
dc.titleMolecular dating and viral load growth rates suggested that the eclipse phase lasted about a week in HIV-1 infected adults in East Africa and Thailanden_US
dc.typeArticleen_US
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