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Home / Archives for Lemey P

Lemey P

Phylogeographical footprint of colonial history in the global dispersal of human immunodeficiency virus type 2 group A.

  • Autores: Camacho RJ, de Sousa JD, Erasmus S, Faria NR, Goncalves MF, Goubau P, Hodges-Mameletzis I, Jallow S, Lemey P, Paolucci S, Pieniazek D, Rodés B, Ruelle J, Silva JC, Soriano V, Suchard MA, Taveira N, Treviño A, Vandamme AM, Xu L
  • Ano de Publicação: 2012
  • Journal: Journal of General Virology
  • Link: http://www.ncbi.nlm.nih.gov/pubmed/?term=Phylogeographical+footprint+of+colonial+history+in+the+global+dispersal+of+human+immunodeficiency+virus+type+2+group+A

Human immunodeficiency virus type 2 (HIV-2) emerged in West Africa and has spread further to countries that share socio-historical ties with this region. However, viral origins and dispersal patterns at a global scale remain poorly understood. Here, we adopt a Bayesian phylogeographic approach to investigate the spatial dynamics of HIV-2 group A (HIV-2A) using a collection of 320 partial pol and 248 partial env sequences sampled throughout 19 countries worldwide.
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International BioInformatics Workshop on Virus Evolution and Molecular Epidemiology

  • Autores: Lemey P, Stanojevic M, Vandamme AM
  • Ano de Publicação: 2013
  • Journal: Infection Genetics and Evolution
  • Link: http://www.ncbi.nlm.nih.gov/pubmed/24120112

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Phylodynamics of the HIV-1 CRF02_AG clade in Cameroon.

  • Autores: Abecasis A, Bonfim I, Camacho RJ, Faria NR, Lemey P, Ndembi N, Sousa JD, Suchard MA, Vandamme AM
  • Ano de Publicação: 2012
  • Journal: Infection Genetics and Evolution
  • Link: http://www.ncbi.nlm.nih.gov/pubmed/?term=Phylodynamics+of+the+HIV-1+CRF02_AG+clade+in+Cameroon

Evolutionary analyses have revealed an origin of pandemic HIV-1 group M in the Congo River basin in the first part of the XX century, but the patterns of historical viral spread in or around its epicentre remain largely unexplored. Here, we combine epidemiologic and molecular sequence data to investigate the spatiotemporal patterns of the CRF02_AG clade.
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High GUD incidence in the early 20 century created a particularly permissive time window for the origin and initial spread of epidemic HIV strains

  • Autores: de Sousa JD, Lemey P, Müller V, Vandamme AM
  • Ano de Publicação: 2010
  • Journal: PLoS One
  • Link: http://www.ncbi.nlm.nih.gov/pubmed/?term=High+GUD+Incidence+in+the+Early+20(th)+Century+Created+a+Particularly+Permissive+Time+Window+for+the+Origin+and+Initial+Spread+of+Epidemic+HIV+Strains

The processes that permitted a few SIV strains to emerge epidemically as HIV groups remain elusive. Paradigmatic theories propose factors that may have facilitated adaptation to the human host (e.g., unsafe injections), none of which provide a coherent explanation for the timing, geographical origin, and scarcity of epidemic HIV strains.
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High GUD incidence in the early 20 century created a particularly permissive time window for the origin and initial spread of epidemic HIV strains

  • Autores: de Sousa JD, Lemey P, Müller V, Vandamme AM
  • Ano de Publicação: 2010
  • Journal: PLoS One
  • Link: http://www.ncbi.nlm.nih.gov/pubmed/?term=High+GUD+Incidence+in+the+Early+20(th)+Century+Created+a+Particularly+Permissive+Time+Window+for+the+Origin+and+Initial+Spread+of+Epidemic+HIV+Strains

The processes that permitted a few SIV strains to emerge epidemically as HIV groups remain elusive. Paradigmatic theories propose factors that may have facilitated adaptation to the human host (e.g., unsafe injections), none of which provide a coherent explanation for the timing, geographical origin, and scarcity of epidemic HIV strains.
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Geographic and Temporal Trends in the Molecular Epidemiology and Genetic Mechanisms of Transmitted HIV-1 Drug Resistance: An Individual-Patient- and Sequence-Level Meta-Analysis

  • Autores: Aghokeng AF, Bertagnolio S, Blanco JL, de Wit TR, Hamers RL, Jordan MR, Lemey P, Rhee S-Y, Taylor J, Varghese V
  • Ano de Publicação: 2015
  • Journal: Plos Medicine
  • Link: http://www.ncbi.nlm.nih.gov/pubmed/25849352

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An integrated map of HIV genome-wide variation from a population perspective

  • Autores: Faria NR, Khouri R, Lemey P, Li G, Piampongsant S, Pineda-Pena A-C, Theys K, Vandamme A-M, Voet A
  • Ano de Publicação: 2015
  • Journal: Retrovirology
  • Link: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4358901/

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The genealogical population dynamics of HIV-1 in a large transmission chain: bridging within and among host evolutionary rates

  • Autores: Baele G, Derdelinckx I, Drummond A, Lemey P, Rambaut A, Suchard MA, Van Laethem K, Van Wijngaerden E, Vandamme AM, Vrancken B
  • Ano de Publicação: 2014
  • Journal: PLoS Computational Biology
  • Link: http://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1003505

Transmission lies at the interface of human immunodeficiency virus type 1 (HIV-1) evolution within and among hosts and separates distinct selective pressures that impose differences in both the mode of diversification and the tempo of evolution. In the absence of comprehensive direct comparative analyses of the evolutionary processes at different biological scales, our understanding of how fast within-host HIV-1 evolutionary rates translate to lower rates at the between host level remains incomplete.
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The early spread and epidemic ignition of HIV-1 in human populations

  • Autores: Arinaminpathy N, Baele G, Bedford T, Faria NR, Lemey P, Peeters M, Pepin J, Posada D, Pybus OG, Rambaut A, Sousa JD, Suchard MA, Tatem AJ, Ward MJ
  • Ano de Publicação: 2014
  • Journal: Science
  • Link: http://www.sciencemag.org/content/346/6205/56.abstract

Thirty years after the discovery of HIV-1, the early transmission, dissemination, and establishment of the virus in human populations remain unclear. Using statistical approaches applied to HIV-1 sequence data from central Africa, we show that from the 1920s Kinshasa (in what is now the Democratic Republic of Congo) was the focus of early transmission and the source of pre-1960 pandemic viruses elsewhere.
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