ArticlePloS one2011
Phylodynamics of HIV-1 from a phase III AIDS vaccine trial in Bangkok, Thailand.
Article in PloS one, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.
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Who cites it
22 citing papers in PubMed, 36 citations in OpenAlex.
- Analysis of genetic linkage of HIV from couples enrolled in the HIV Prevention Trials Network 052 trial.The Journal of infectious diseases · 2011Trial
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- ProteinEvolverABC: coestimation of recombination and substitution rates in protein sequences by approximate Bayesian computation.Bioinformatics (Oxford, England) · 2021Article
- A cross-sectional study to characterize local HIV-1 dynamics in Washington, DC using next-generation sequencing.Scientific reports · 2020Article
- Microbial sequence typing in the genomic era.Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases · 2018Review
- The changing HIV-1 genetic characteristics and transmitted drug resistance among recently infected population in Yunnan, China.Epidemiology and infection · 2018Article
- Virus-Like Particle, Liposome, and Polymeric Particle-Based Vaccines against HIV-1.Frontiers in immunology · 2018Review
- Characterization of HIV diversity, phylodynamics and drug resistance in Washington, DC.PloS one · 2017Article
- Worldwide Genetic Features of HIV-1 Env α4β7 Binding Motif: The Local Dissemination Impact of the LDI Tripeptide.Journal of acquired immune deficiency syndromes (1999) · 2015Article
- Recombination in viruses: mechanisms, methods of study, and evolutionary consequences.Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases · 2015Review
- Trends in substitution models of molecular evolution.Frontiers in genetics · 2015Article
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- Genetic and epidemiological insights into the emergence of peste des petits ruminants virus (PPRV) across Asia and Africa.Scientific reports · 2014Article
- Spatial and temporal simulation of human evolution. Methods, frameworks and applications.Current genomics · 2014Article
- Phylogenetic inferences on HIV-1 transmission: implications for the design of prevention and treatment interventions.AIDS (London, England) · 2013Review
- Computer programs and methodologies for the simulation of DNA sequence data with recombination.Frontiers in genetics · 2013Article
- Population-Sequencing as a Biomarker for Sample Characterization.Journal of biomarkers · 2013Article
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- The importance and application of the ancestral recombination graph.Frontiers in genetics · 2013Article
Corrections and comments
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Authors and funding
7 authors at 5 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundIn 2003, a phase III placebo-controlled trial (VAX003) was completed in Bangkok, Thailand. Of the 2,546 individuals enrolled in the trial based on high risk for infection through injection drug use (IDU), we obtained clinical samples and HIV-1 sequence data (envelope glycoprotein gene gp120) from 215 individuals who became infected during the trial. Here, we used these data in combination with other publicly available gp120 sequences to perform a molecular surveillance and phylodynamic analysis of HIV-1 in Thailand. METHODOLOGY AND
findingsPhylogenetic and population genetic estimators were used to assess HIV-1 gp120 diversity as a function of vaccination treatment, viral load (VL) and CD4(+) counts, to identify transmission clusters and to investigate the timescale and demographics of HIV-1 in Thailand. Three HIV-1 subtypes were identified: CRF01_AE (85% of the infections), subtype B (13%) and CRF15_AE (2%). The Bangkok IDU cohort showed more gp120 diversity than other Asian IDU cohorts and similar diversity to that observed in sexually infected individuals. Moreover, significant differences (P<0.02) in genetic diversity were observed in CRF01_AE IDU with different VL and CD4(+) counts. No phylogenetic structure was detected regarding any of the epidemiological and clinical factors tested, although high proportions (35% to 50%) of early infections fell into clusters, which suggests that transmission chains associated with acute infection play a key role on HIV-1 spread among IDU. CRF01_AE was estimated to have emerged in Thailand in 1984.5 (1983-1986), 3-6 years before the first recognition of symptomatic patients (1989). The relative genetic diversity of the HIV-1 population has remained high despite decreasing prevalence rates since the mid 1990s.
conclusionsOur study and recent epidemiological reports indicate that HIV-1 is still a major threat in Thailand and suggest that HIV awareness and prevention needs to be strengthened to avoid AIDS resurgence.
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