Molecular epidemiology of HIV-1 subtypes in India: Origin and evolutionary history of the predominant subtype C

Ujjwal Neogi, Irene Bontell, Anita Shet, Ayesha de Costa, Soham Gupta, Vishal Diwan, Ranbir S. Laishram, Ajay Wanchu, Udaykumar Ranga, Akhil C. Banerjea, Anders Sönnerborg

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Abstract

Background: India has the third largest HIV-1 epidemic with 2.4 million infected individuals. Molecular epidemiological analysis has identified the predominance of HIV-1 subtype C (HIV-1C). However, the previous reports have been limited by sample size, and uneven geographical distribution. The introduction of HIV-1C in India remains uncertain due to this lack of structured studies. To fill the gap, we characterised the distribution pattern of HIV-1 subtypes in India based on data collection from nationwide clinical cohorts between 2007 and 2011. We also reconstructed the time to the most recent common ancestor (tMRCA) of the predominant HIV-1C strains. Methodology/Principal Findings: Blood samples were collected from 168 HIV-1 seropositive subjects from 7 different states. HIV-1 subtypes were determined using two or three genes, gag, pol, and env using several methods. Bayesian coalescent-based approach was used to reconstruct the time of introduction and population growth patterns of the Indian HIV-1C. For the first time, a high prevalence (10%) of unique recombinant forms (BC and A1C) was observed when two or three genes were used instead of one gene (p

Original languageEnglish (US)
Article numbere39819
JournalPLoS One
Volume7
Issue number6
DOIs
Publication statusPublished - Jun 29 2012

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ASJC Scopus subject areas

  • Agricultural and Biological Sciences(all)
  • Biochemistry, Genetics and Molecular Biology(all)
  • Medicine(all)

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Neogi, U., Bontell, I., Shet, A., de Costa, A., Gupta, S., Diwan, V., ... Sönnerborg, A. (2012). Molecular epidemiology of HIV-1 subtypes in India: Origin and evolutionary history of the predominant subtype C. PLoS One, 7(6), [e39819]. https://doi.org/10.1371/journal.pone.0039819