ArticleJournal of virology2013
Estimating the rate of intersubtype recombination in early HIV-1 group M strains.
Article in Journal of virology, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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Who cites it
14 citing papers in PubMed.
- Pervasive and non-random recombination in near full-length HIV genomes from Uganda.Virus evolution · 2020Article
- Utility Of POC Xpert HIV-1 Tests For Detection-Quantification Of Complex HIV Recombinants Using Dried Blood Spots From Kinshasa, D. R. Congo.Scientific reports · 2019Article
- First-line HIV treatment failures in non-B subtypes and recombinants: a cross-sectional analysis of multiple populations in Uganda.AIDS research and therapy · 2019Article
- Evidence for a recombinant origin of HIV-1 Group M from genomic variation.Virus evolution · 2019Article
- Terrestrial Bird Migration and West Nile Virus Circulation, United States.Emerging infectious diseases · 2018Article
- Molecular epidemiology of a primarily MSM acute HIV-1 cohort in Bangkok, Thailand and connections within networks of transmission in Asia.Journal of the International AIDS Society · 2018Article
- Emerging Concepts of Data Integration in Pathogen Phylodynamics.Systematic biology · 2017Review
- Phylogenetic Tools for Generalized HIV-1 Epidemics: Findings from the PANGEA-HIV Methods Comparison.Molecular biology and evolution · 2017Article
- Human Immunodeficiency Virus (HIV).Transfusion medicine and hemotherapy : offizielles Organ der Deutschen Gesellschaft fur Transfusionsmedizin und Immunhamatologie · 2016Article
- Reassortment between influenza B lineages and the emergence of a coadapted PB1-PB2-HA gene complex.Molecular biology and evolution · 2015Article
- HIV epidemiology. The early spread and epidemic ignition of HIV-1 in human populations.Science (New York, N.Y.) · 2014Article
- Drug resistance in non-B subtype HIV-1: impact of HIV-1 reverse transcriptase inhibitors.Viruses · 2014Review
- MEGA6: Molecular Evolutionary Genetics Analysis version 6.0.Molecular biology and evolution · 2013Article
- Overview of the current state of the epidemic.Current HIV/AIDS reports · 2013Article
Corrections and comments
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Authors and funding
5 authors.
Funding
Abstract
West Central Africa has been implicated as the epicenter of the HIV-1 epidemic, and almost all group M subtypes can be found there. Previous analysis of early HIV-1 group M sequences from Kinshasa in the Democratic Republic of Congo, formerly Zaire, revealed that isolates from a number of individuals fall in different positions in phylogenetic trees constructed from sequences from opposite ends of the genome as a result of recombination between viruses of different subtypes. Here, we use discrete ancestral trait mapping to develop a procedure for quantifying HIV-1 group M intersubtype recombination across phylogenies, using individuals' gag (p17) and env (gp41) subtypes. The method was applied to previously described HIV-1 group M sequences from samples obtained in Kinshasa early in the global radiation of HIV. Nine different p17 and gp41 intersubtype recombinant combinations were present in the data set. The mean number of excess ancestral subtype transitions (NEST) required to map individuals' p17 subtypes onto the gp14 phylogeny samples, compared to the number required to map them onto the p17 phylogenies, and vice versa, indicated that excess subtype transitions occurred at a rate of approximately 7 × 10(-3) to 8 × 10(-3) per lineage per year as a result of intersubtype recombination. Our results imply that intersubtype recombination may have occurred in approximately 20% of lineages evolving over a period of 30 years and confirm intersubtype recombination as a substantial force in generating HIV-1 group M diversity.
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