Origin and dynamics of HIV-1 subtype c infection in India

Shen, C and Craigo, J and Ding, M and Chen, Y and Gupta, P (2011) Origin and dynamics of HIV-1 subtype c infection in India. PLoS ONE, 6 (10).

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Abstract

Objective: To investigate the geographical origin and evolution dynamics of HIV-1 subtype C infection in India. Design: Ninety HIV-1 subtype C env gp120 subtype C sequences from India were compared with 312 env gp120 reference subtype C sequences from 27 different countries obtained from Los Alamos HIV database. All the HIV-1 subtype C env gp120 sequences from India were used for the geographical origin analysis and 61 subtype C env gp120 sequences with known sampling year (from 1991 to 2008) were employed to determine the origin of HIV infection in India. Methods: Phylogenetic analysis of HIV-1 env sequences was used to investigate the geographical origin and tMRCA of Indian HIV-1 subtype C. Evolutionary parameters including origin date and demographic growth patterns of Indian subtype C were estimated using a Bayesian coalescent-based approach under relaxed molecular clock models. Findings: The majority of the analyzed Indian and South African HIV-1 subtype C sequences formed a single monophyletic cluster. The most recent common ancestor date was calculated to be 1975.56 (95% HPD, 1968.78-1981.52). Reconstruction of the effective population size revealed three phases of epidemic growth: an initial slow growth, followed by exponential growth, and then a plateau phase approaching present time. Stabilization of the epidemic growth phase correlated with the foundation of National AIDS Control Organization in India. Interpretation: Indian subtype C originated from a single South African lineage in the middle of 1970s. The current study emphasizes not only the utility of HIV-1 sequence data for epidemiological studies but more notably highlights the effectiveness of community or government intervention strategies in controlling the trend of the epidemic. © 2011 Shen et al.

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Details

Item Type:	Article
Status:	Published
Creators/Authors:	Creators Email Pitt Username ORCID Shen, C chs97@pitt.edu CHS97 Craigo, J Ding, M mding@pitt.edu MDING Chen, Y CHENY@pitt.edu CHENY Gupta, P pgupta1@pitt.edu PGUPTA1
Contributors:	Contribution Contributors Name Email Pitt Username ORCID Editor Harrich, David UNSPECIFIED UNSPECIFIED UNSPECIFIED
Centers:	Other Centers, Institutes, Offices, or Units > Center for Vaccine Research
Date:	10 October 2011
Date Type:	Publication
Journal or Publication Title:	PLoS ONE
Volume:	6
Number:	10
DOI or Unique Handle:	10.1371/journal.pone.0025956
Schools and Programs:	School of Public Health > Infectious Diseases and Microbiology School of Medicine > Microbiology and Molecular Genetics
Refereed:	Yes
MeSH Headings:	Bayes Theorem; Evolution, Molecular; Geography; HIV Envelope Protein gp120--genetics; HIV Infections--epidemiology; HIV Infections--virology; HIV-1--classification; HIV-1--genetics; HIV-1--pathogenicity; Humans; India--epidemiology; Phylogeny
Other ID:	NLM PMC3189977
PubMed Central ID:	PMC3189977
PubMed ID:	22016790
Date Deposited:	10 Sep 2012 14:17
Last Modified:	02 Feb 2019 16:56
URI:	http://d-scholarship.pitt.edu/id/eprint/13981

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