Molecular Epidemiology of HIV-1 Subtypes in India: Origin and Evolutionary History of the Predominant Subtype C

EA Simoes, 1987, Evidence for HTLV-III infection in prostitutes in Tamil Nadu (India)., Indian J Med Res, 85, 335

U Neogi, 2009, Global HIV-1 molecular epidemiology with special reference to genetic analysis of HIV-1 subtypes circulating in North India: functional and pathogenic implications of genetic variation., Indian J Exp Biol, 47, 424

AJ Kandathil, 2005, Molecular epidemiology of HIV., Indian J Med Res, 121, 333

U Neogi, 2011, Genetic architecture of HIV-1 genes circulating in North India and their functional implications., Indian J Med Res, 134, 769, 10.4103/0971-5916.92624

U Neogi, 2012, Higher prevalence of predicted X4-tropic strains in perinatally-infected older children with HIV-1 subtype C in India., J Acquir Immune Defic Syndr, 59, 347, 10.1097/QAI.0b013e3182405c7b

DA Gadkari, 1998, Transmission of genetically diverse strains of HIV-1 in Pune, India., Indian J Med Res, 107, 1

D Mandal, 2002, HIV type 1 subtypes circulating in eastern and northeastern regions of India., AIDS Res Hum Retroviruses, 18, 1219, 10.1089/08892220260387968

AK Sahni, 2002, Genomic diversity of human immunodeficiency virus type-1 in India., Int J STD AIDS, 13, 115, 10.1258/0956462021924749

J Hemelaar, 2011, Global trends in molecular epidemiology of HIV-1 during 2000–2007., AIDS, 25, 679, 10.1097/QAD.0b013e328342ff93

AB Abecasis, 2009, Quantifying differences in the tempo of human immunodeficiency virus type 1 subtype evolution., J Virol, 83, 12917, 10.1128/JVI.01022-09

V Novitsky, 2010, HIV-1 Subtype C phylodynamics in the global epidemic., Viruses, 2, 33, 10.3390/v2010033

SA Travers, 2004, Timing and reconstruction of the most recent common ancestor of the subtype C clade of human immunodeficiency virus type 1., J Virol, 78, 10501, 10.1128/JVI.78.19.10501-10506.2004

G Bello, 2008, Origin and evolutionary history of HIV-1 subtype C in Brazil., AIDS, 22, 1993, 10.1097/QAD.0b013e328315e0aa

NM Véras, 2011, High-resolution phylogenetics and phylogeography of human immunodeficiency virus type 1 subtype C epidemic in South America., J Gen Virol, 92, 1698, 10.1099/vir.0.028951-0

SC Dalai, 2009, Evolution and molecular epidemiology of subtype C HIV-1 in Zimbabwe., AIDS, 23, 2523, 10.1097/QAD.0b013e3283320ef3

DC Tully, 2010, Chronology and evolution of the HIV-1 subtype C epidemic in Ethiopia. AIDS., 24, 1577

T de Oliveira, 2010, The HIV-1 subtype C epidemic in South America is linked to the United Kingdom. PLoS One., 5, e9311

KK Tee, 2008, Temporal and spatial dynamics of human immunodeficiency virus type 1 circulating recombinant forms 08_BC and 07_BC in Asia., J Virol, 82, 9206, 10.1128/JVI.00399-08

C Shen, 2011, Origin and dynamics of HIV-1 subtype C infection in India., PLoS One, 6, e25956, 10.1371/journal.pone.0025956

AJ Drummond, 2007, BEAST: Bayesian evolutionary analysis by sampling trees., BMC Evol Bio, 7, 214, 10.1186/1471-2148-7-214

S Sengupta, 2005, Polymorphism of HIV-1 gag (p17) gene from female sex workers in Calcutta, India., Arch Virol, 150, 2117, 10.1007/s00705-005-0562-5

U Neogi, 2008, Novel HIV-1 long terminal repeat (LTR) sequences of subtype B and mosaic intersubtype B/C recombinants in North India., Arch Virol, 153, 1961, 10.1007/s00705-008-0210-y

KS Lole, 1999, Full-length human immunodeficiency virus type 1 genomes from subtype C-infected seroconverters in India, with evidence of intersubtype recombination., J Virol, 73, 152, 10.1128/JVI.73.1.152-160.1999

NB Siddappa, 2005, Identification of unique B/C recombinant strains of HIV-1 in the southern state of Karnataka, India., AIDS, 19, 1426, 10.1097/01.aids.0000180795.49016.89

AS Bano, 2009, Genetic and functional characterization of HIV-1 VprC variants from North India: Presence of unique recombinants with mosaic genomes from B, C and D subtypes within the ORF of Vpr., J Gen Virol, 90, 2768, 10.1099/vir.0.011080-0

S Lakhashe, 2008, Evidence of a novel B/C recombinant exhibiting unique breakpoints of near full-length HIV type 1 genome from Northeastern India., AIDS Res Hum Retroviruses, 24, 229, 10.1089/aid.2007.0229

U Neogi, 2010, Naturally occurring polymorphisms and primary drug resistance profile among antiretroviral-naïve individuals in Bangalore, India., AIDS Res Hum Retroviruses, 26, 1097, 10.1089/aid.2010.0092

K Tamura, 2011, MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods., Mol Biol Evol, 28, 2731, 10.1093/molbev/msr121

MA Larkin, 2007, Clustal W and Clustal X version 2.0. Bioinformatics., 23, 2947

D Posada, 2008, jModelTest: phylogenetic model averaging., Mol Biol Evol, 25, 1253, 10.1093/molbev/msn083