HIV-1 pol sequences from India fit distinct subtype pattern

Journal of Acquired Immune Deficiency Syndromes and Human Retrovirology

Volumn 13, Issue 4, 1996, Pages 299-307

  Soto Ramirez, Luis E ^a   Tripathy, Srikanth ^a   Renjifo, Boris ^a   Essex, Max ^a,b  

^a Harvard AIDS Institute   (United States)

^b HARVARD SCHOOL OF PUBLIC HEALTH   (United States)

Author keywords

env sequences; Human immunodeficiency virus type 1; Phylogenetic analysis; pol sequences

Indexed keywords

ENVELOPE PROTEIN; GAG PROTEIN; POL PROTEIN; VIRUS PROTEIN;

ACQUIRED IMMUNE DEFICIENCY SYNDROME; AMINO ACID SEQUENCE; ARTICLE; GENOTYPE; GEOGRAPHIC DISTRIBUTION; HUMAN; HUMAN IMMUNODEFICIENCY VIRUS 1; HUMAN IMMUNODEFICIENCY VIRUS INFECTION; INDIA; MAJOR CLINICAL STUDY; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; PRIORITY JOURNAL; SERODIAGNOSIS; VIRUS ENVELOPE; VIRUS ISOLATION;

HUMAN IMMUNODEFICIENCY VIRUS; HUMAN IMMUNODEFICIENCY VIRUS 1;

EID: 0029826641     PISSN: 10779450     EISSN: None     Source Type: Journal    
DOI: 10.1097/00042560-199612010-00001     Document Type: Article

References (41)

1. Weniger BG, Takebe Y, Ou C-Y, Yamazaki S. The molecular epidemiology of HIV in Asia. AIDS 1994;8(suppl 2): S13-28.
2. Delwart EL, Shpaer EG, Louwagie J, et al. Genetic relationships determined by a DNA heteroduplex mobility assay: analysis of HIV-1 env genes. Science 1993;262:1257-61.
3. Louwagie J, McCutchan FE, van der Groen G, et al. Genetic comparison of HIV isolates from Africa, Europe and North America. AIDS Res Hum Retrovirus 1992;8:1467-9.
4. Louwagie J, Delwart EL, Mullins JE, McCutchan FE, Eddy G, Burke DS. Genetic analysis of HIV-1 isolates from Brazil reveals presence of two distinct genetic subtypes. AIDS Res Hum Retrovirus 1994;10:561-7.
5. Louwagie J, Janssens W, Mascola J, et al. Genetic diversity of the envelope glycoprotein from human immunodeficiency virus type 1 isolates of African origin. J Virol 1995;69:263-71.
6. McCutchan FE, Hegerich PA, Brenan TP, et al. Genetic variants of HIV-1 in Thailand. AIDS Res Hum Retrovirus 1992;8:1887-95.
7. Myers G, Korber B, Wain-Hobson S, Jeang K-T, Henderson LE, Pavlakis GN. Human retroviruses and AIDS 1994. Los Alamos: Los Alamos National Laboratory, 1994.
8. Myers G, Korber B, Wain-Hobson S, Jeang K-T, Henderson LE, Pavlakis GN. Human retroviruses and AIDS 1995. Los Alamos: Los Alamos National Laboratory, 1995.
9. Charneu P, Borman AW, Quillent C, et al. Isolation and envelope sequence of a highly divergent HIV-1 isolate: definition of a new HIV-1 group. Virology 1994;205:247-53.
10. Korber B, Gifford A, Myers G. Patterns of variation among international isolates in the highly immunogenic V3 region of the HIV-1 envelope protein [Abstract] AIDS Res Hum Retrovirus 1993;9(suppl 1):S98.
11. Ichimura H, Kliks SC, Visrutaratna S, Ou C-Y, Kalish ML, Levy JA. Biological, serological, and genetic characterization of HIV-1 subtype E isolates from northern Thailand. AIDS Res Hum Retrovirus 1994;10:362-9.
12. Grez M, Dietrich U, Balfe P, et al. Genetic analysis of HIV type 1 and 2 mixed infections in India reveals a recent spread of HIV 1 and 2 from a single ancestor for each of these viruses. J Virol 1994;68:2161-8.
13. Tsuchie H, Sarawathy TS, Sinniah M, et al. HIV-1 variants in south and south-east Asia. Int J Study AIDS 1995;6:117-20.
14. Louwagie J, McCutchan FE, Peeters M, et al. Phylogenetic analysis of gag genes from 70 international HIV-1 isolates provides evidence for multiple genotypes. AIDS 1993;7:769-80.
15. Essex M. Retroviral vaccines: challenges for the developing world. AIDS Res Hum Retrovirus 1996;12:361-3.
16. Simoes EAF, Babu PG, John TJ. Evidence for HTLV-III infection in prostitutes in Tamil Nadu (India). Indian J Med Res 1987;85:335-8.
17. Naik TN, Sarkar S, Singh HL, et al. Intravenous drug users - a new high risk group for HIV infection in India. AIDS 1991;5:117-8.
18. Singh YN, Bhargava M, Malaviya AN, Tripathy SP, Kakkar A, Khare SD. HIV infection in Asian Indian patients with hemophilia and those who had multiple transfusions. Indian J Med Res 1991;93:12-4.
19. Jain MK, John TJ, Keusch GT. Epidemiology of HIV and AIDS in India. AIDS 1994;8(suppl 2):S61-75.
20. Jameel S, Zafrullah M, Ahmad M, Kapoor GS, Sehgal S. A genetic analysis of HIV-1 from Punjab, India reveals the presence of multiple variants. AIDS 1995;9:685-90.
21. Baskar PV, Ray SC, Rao R, Quinn TC, Hildreth JEK, Bollinger RC. Presence in India of HIV type 1 similar to North American strains. AIDS Res Hum Retrovirus 1994; 10:1039-41.
22. Mellors JW, Larder BA, Schinazi RF. Mutations in HIV-1 reverse transcriptase and protease associated with drug resistance. In: Myers G, Korber B, Wain-Hobson S, Jeang K-T, Henderson LE, Pavlakis GN, eds. Human retroviruses and AIDS 1994. Los Alamos: Los Alamos National Laboratory, 1994:III-93-106.
23. Center for Disease Control. Classification system for human-T-lymphotropic virus type III/lymphadenopathy-associated virus infections. MMWR 1986;35:334-9.
24. Sambrook J, Fritsch EF, Maniatis T. Molecular cloning. A laboratory manual. Cold Spring Harbor: Cold Spring Harbor Laboratory Press, 1989:9.16-21.
25. Thompson JD, Higgins DG, Gibson TJ. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acid Res 1994; 22:4673-80.
26. Felsenstein J. PHYLIP (Phylogeny Inference Package) version 3.56c. 1993. University of Washington, Seattle.
27. Nei M, Gojobori T. Simple methods for estimating the numbers of synonymous to nonsynonymous nucleotide substitutions. Mol Biol Evol 1986;3:418-26.
28. Piot P, Plummer FA, Mhalu FS, Lamborary J-L, Chin J, Mann JM. AIDS: an international perspective. Science 1988; 239:573-9.
29. Piot P, Laga M. Epidemiology of AIDS in the developing world. In: Broder S, Merigan TC Jr, Bolognesi D, eds. Textbook of AIDS medicine, 1994. Baltimore: Williams & Wilkins, 1994:109-32.
30. Alizon M, Wain-Hobson S, Montaigner L, Sonigo P. Genetic variability of the AIDS virus: nucleotide sequence analysis of two isolates from African patients. Cell 1986;46: 63-74.
31. Myers G, Korber B, Berzofsky JA, Smith RF, Pavlakis GN. Human retroviruses and AIDS 1992. Los Alamos: Los Alamos National Laboratory, 1992.
32. Haesevelde MV, Decourt J-L, Deeleys RJ, et al. Genomic cloning and complete sequence of a highly divergent African human immunodeficiency virus isolate. J Virol 1994;68: 1586-96.
33. WHO Network for HIV Isolation and Characterization. HIV type 1 variation in World Health Organization-sponsored vaccine evaluation sites: genetic screening, sequence analysis, and preliminary biological characterization of selected viral strains. AIDS Res Hum Retrovirus 1994;10:1327-43.
34. Goff SP. Retroviral reverse transcriptase: synthesis, structure and function. J AIDS 1990;3:817-31.
35. Tripathy S, Renjifo B, Wang W-K, et al. Envelope gp120 sequences of primary HIV-1 isolates from Pune and New Delhi, India. AIDS Res Hum Retrovirus 1996;12:1203-6.
36. Ou C-Y, Takebe Y, Weniger BG, et al. Independent introduction of two major HIV-1 genotypes into distinct high-risk populations in Thailand. Lancet 1993;341:1171-4 [errata corrected in 1993;342:250].
37. Learn GH Jr, Korber BT, Foley B, Hahn BH, Wolinsky SM, Mullins JI. Maintaining the integrity of human immunodeficiency virus sequence databases. J Virol 1996;70:5720-30.
38. Sharp PM, Robertson DL, Gao F, Hahn BH. Origins and diversity of human immunodeficiency viruses. AIDS 1994;8 (suppl 1):S27-42.
39. Leigh Brown AJ. Sequence variability in human immunodeficiency viruses: patter and process in viral evolution. AIDS 1991;5(suppl 2):S35-42.
40. Balfe P, Simmonds P, Ludlam CA, Bishop JO, Leigh Brown AJ. Concurrent evolution of human immunodeficiency virus type 1 in patients infected from the same source: rate of sequence change and low frequency of inactivating mutations. J Virol 1990;64:6221-33.
41. Hillis DM, Bull JJ. An empirical test of bootstrapping as a method for assessing confidence phylogenetic analysis. Syst Biol 1993;42:182-92.