Investigation of population diversity of human immunodeficiency virus type 1 in vivo by nucleotide sequencing and length polymorphism analysis of the V1/V2 hypervariable region of env

Journal of General Virology

Volumn 78, Issue 11, 1997, Pages 2871-2882

  Hughes, Elizabeth S ^a   Bell, Jeanne E ^a   Simmonds, Peter ^a  

^a UNIVERSITY OF EDINBURGH   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

ACQUIRED IMMUNE DEFICIENCY SYNDROME; AMINO ACID SEQUENCE; ARTICLE; CASE REPORT; GENETIC POLYMORPHISM; HUMAN; HUMAN IMMUNODEFICIENCY VIRUS 1; HUMAN TISSUE; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; VIRUS ENCEPHALITIS;

HUMAN IMMUNODEFICIENCY VIRUS; HUMAN IMMUNODEFICIENCY VIRUS 1;

EID: 0030666591     PISSN: 00221317     EISSN: None     Source Type: Journal    
DOI: 10.1099/0022-1317-78-11-2871     Document Type: Article

References (44)

1. Andeweg, A. C., Leeflang, P., Osterhaus, A. D. M. E. & Bosch, M. L. (1993). Both the V2 and V3 regions of the human immunodeficiency virus type-1 surface glycoprotein functionally interact with other envelope regions in syncytium formation. Journal of Virology 67, 3232-3239.
2. Bernstein, H. B., Tucker, S. P., Hunter, E., Schutzbach, J. S. & Compans, R. W. (1994). Human immunodeficiency virus type 1 envelope glycoprotein is modified by O-linked oligosaccharides. Journal of Virology 68, 463-468.
3. Chesebro, B., Wehrly, K., Nishio, J. & Perryman, S. (1992). Macrophage-tropic human immunodeficiency virus isolates from different patients exhibit unusual V3 envelope sequence homogeneity in comparison with T cell-tropic isolates: definition of critical amino acids involved in cell tropism. Journal of Virology 66, 6547-6554.
4. Cornelissen, M., Hogervorst, E., Zorgdrager, F., Hartman, S. & Goudsmit, J. (1995). Maintenance of syncytium-inducing phenotype of HIV type 1 is associated with positively charged residues in the HIV type 1 gp120 V2 domain without fixed positions, elongation, or relocated N-linked glycosylation sites. AIDS Research and Human Retroviruses 11, 1169-1175.
5. Donaldson, Y. K., Bell, J. E., Holmes, E. C., Hughes, E. S., Brown, H. K. & Simmonds, P. (1994 a). In vivo distribution and cytopathology of variants of human immunodeficiency virus type 1 showing restricted sequence variability in the V3 loop. Journal of Virology 68, 5991-6005.
6. Donaldson, Y. K., Bell, J. E., Ironside, J. W., Brettle, R. P., Robertson, J. R., Busuttil, A. & Simmonds, P. (1994 b). Redistribution of HIV outside the lymphoid system with onset of AIDS. Lancet 343, 382-385.
7. Felsenstein, J. (1989). PHYLIP-phylogeny inference package (version 3.2). Cladistics 5, 164-166.
8. Fouchier, R. A. M., Broersen, S. M., Brouwer, M., Tersmette, M., Vantwout, A. B., Groenink, M. & Schuitemaker, H. (1995). Temporal relationship between elongation of the HIV type 1 glycoprotein 120 V2 domain and the conversion toward a syncytium-inducing phenotype. AIDS Research and Human Retroviruses 11, 1473-1478.
9. Fung, M. S., Sun, C. R., Gordon, W. L., Liou, R. S., Chang, T. W., Sun, W. N., Daar, E. S. & Ho, D. D. (1992). Identification and characterization of a neutralization site within the second variable region of human immunodeficiency virus type 1 gp120. Journal of Virology 66, 848-856.
10. Ganeshan, S., Dickover, R. E., Korber, B. T. M., Bryson, Y. J. & Wolinsky, S. M. (1997). Human immunodeficiency virus type 1 genetic evolution in children with different rates of development of disease. Journal of Virology 71, 663-677.
11. Gram, G. J., Hemming, A., Bolmstedt, A., Jansson, B., Olofsson, S., Akerblom, L., Nielsen, J. O. & Hansen, J. E. S. (1994). Identification of an N-linked glycan in the V1-loop of HIV-1 gp120 influencing neutralization by anti-V3 antibodies and soluble CD4. Archives of Virology 139, 253-261.
12. Groenink, M., Fouchier, R. A. M., Broersen, S., Baker, C. H., Koot, M., Van't Wout, A. B., Huisman, H. G., Miedema, F., Tersmette, M. & Schuitemaker, H. (1993). Relation of phenotype evolution of HIV-1 to envelope V2 configuration. Science 260, 1513-1516.
13. Hansen, J. E., Nielsen, C., Arendrup, M., Olofsson, S., Mathiesen, L., Nielsen, J. O. & Clausen, H. (1991). Broadly neutralizing antibodies targeted to mucin-type carbohydrate epitopes of human immunodeficiency virus type 1. Journal of Virology 65, 6461-6467.
14. gag and env genes. Journal of Virology 71, 1272-1280.
15. Hwang, S. S., Boyle, T. J., Lyerly, H. K. & Cullen, B. R. (1991). Identification of the envelope V3 loop as the primary determinant of cell tropism in HIV-1. Science 253, 71-74.
16. Jentoft, N. (1990). Why are proteins O-glycosylated? Trends in Biochemical Sciences 15, 291-294.
17. Kasper, P., Simmonds, P., Schneweis, K. E., Kaiser, R., Matz, B., Oldenburg, J., Brackmann, H. H. & Holmes, E. C. (1995). The genetic diversification of the HIV type 1 gag p17 gene in patients infected from a common source. AIDS Research and Human Retroviruses 11, 1197-1201.
18. Koito, A., Harrowe, G., Levy, J. A. & Chengmayer, C. (1994). Functional role of the V1/V2 region of human immunodeficiency virus type 1 envelope glycoprotein gp120 in infection of primary macrophages and soluble CD4 neutralization. Journal of Virology 68, 2253-2259.
19. Korber, B. T. M., Kunstman, K. J., Patterson, B. K., Furtado, M., McEvilly, M. M., Levy, R. & Wolinsky, S. M. (1994). Genetic differences between blood- and brain-derived viral sequences from human immunodeficiency virus type 1-infected patients: evidence of conserved elements m the V3 region of the envelope protein of brain-derived sequences. Journal of Virology 68, 7467-7481.
20. Kumar, S., Tamura, K. & Nei, M. (1993). MEGA: Molecular Evolutionary Genetics Analysis, version 1.0. University Park: The Pennsylvania State University.
21. Lamers, S. L., Sleasman, J. W., She, J. X., Barrie, K. A., Pomeroy, S. M., Barrett, D. J. & Goodenow, M. M. (1993). Independent variation and positive selection in env V1 and V2 domains within maternal-infant strains of human immunodeficiency virus type-1 in vivo. Journal of Virology 67, 3951-3960.
22. Leonard, C. K., Spellman, M. W., Riddle, L., Harris, R. J., Thomas, J. N. & Gregory, T. J. (1990). Assignment of intrachain disulfide bonds and characterization of potential glycosylation sites of the type 1 recombinant human immunodeficiency virus envelope glycoprotein (gp120) expressed in Chinese hamster ovary cells. Journal of Biological Chemistry 265, 10373-10382.
23. Li, W. H., Tanimura, M. & Sharp, P. M. (1988). Rates and dates of divergence between AIDS virus nucleotide sequences. Molecular Biology and Evolution 5, 313-330.
24. Lukashov, V. V., Kuiken, C. L. & Goudsmit, J. (1995). Intrahost human immunodeficiency virus type 1 evolution is related to length of the immunocompetent period. Journal of Virology 69, 6911-6916.
25. McKeating, J. A., Shotton, C., Cordell, J., Graham, S., Balfe, P., Sullivan, N., Charles, M., Page, M., Bolmstedt, A., Olofsson, S., Kayman, S. C., Wu, Z., Pinter, A., Dean, C., Sodroski, J. & Weiss, R. A. (1993). Characterization of neutralizing monoclonal antibodies to linear and conformation-dependent epitopes within the 1st and 2nd variable domains of human immunodeficiency virus type-1 gp120. Journal of Virology 67, 4932-4944.
26. Moore, J. P., Sattentau, Q. J., Yoshiyama, H., Thali, M., Charles, M., Sullivan, N., Poon, S. W., Fung, M. S., Traincard, F., Pinkus, M., Robey, G., Robinson, J. E., Ho, D. D. & Sodroski, J. (1993). Probing the structure of the V2-domain of human immunodeficiency virus type-1 surface glycoprotein gp120 with a panel of eight monoclonal antibodies - human immune response to the V1-domain and V2-domain. Journal of Virology 67, 6136-6151.
27. Nowak, M. A., Anderson, R. M., McLean, A. R., Wolfs, T. F. W., Goudsmit, J. & May, R. M. (1991). Antigenic diversity thresholds and the development of AIDS. Science 254, 963-969.
28. Palmer, C., Balfe, P., Fox, D., May, J. C., Frederiksson, R., Fenyo, E. M. & McKeating, J. A. (1996). Functional characterization of the V1/V2 region of human immunodeficiency virus type 1. Virology 220, 436-449.
29. Phillips, R. E., Rowland Jones, S., Nixon, D. F., Gotch, F. M., Edwards, J. P., Ogunlesi, A. O., Elvin, J. G., Rothbard, J. A., Bangham, C. R. & Rizza, C. R. (1991). Human immunodeficiency virus genetic variation that can escape cytotoxic T cell recognition. Nature 354, 453-459.
30. Price, R. W., Brew, B., Sidtis, J., Rosenblum, M., Scheck, A. C. & Cleary, P. (1988). The brain in AIDS: central nervous system HIV-1 and AIDS dementia complex. Science 239, 586-592.
31. Reddy, R. T., Achim, C. L., Sirko, D. A., Tehranchi, S., Kraus, F. G., Wongstaal, F., Wiley, C. A., Grant, J., Atkinson, J. H., Kelly, M., Chandler, J. L., Wallace, M. R., McCutchan, J. A., Spector, S. A., Thal, L., Heaton, R. K., Hesselink, J., Jernigan, T., Masliah, E., Abramson, I., Butters, N., Patterson, T., Zisook, S. & Jeste, D. (1996). Sequence analysis of the V3 loop in brain and spleen of patients with HIV encephalitis. AIDS Research and Human Retroviruses 12, 477-482.
32. Shioda, T., Levy, J. A. & Cheng-Mayer, C. (1992). Small amino acid changes in the V3 hypervariable region of gp120 can affect the T-cell line and macrophage tropism of human immunodeficiency virus type 1. Proceedings of the National Academy of Sciences, USA 89, 9434-9438.
33. Shioda, T., Oka, S., Ida, S., Nokihara, K., Toriyoshi, H., Mori, S., Takebe, Y., Kimura, S., Shimada, K. & Nagai, Y. (1994). A naturally occurring single basic amino acid substitution in the V3 region of the human immunodeficiency virus type 1 env protein alters the cellular host range and antigenic structure of the virus. Journal of Virology 68, 7689-7696.
34. Simmonds, P., Balfe, P., Ludlam, C. A., Bishop, J. O. & Leigh Brown, A. J. (1990 a). Analysis of sequence diversity in hypervariable regions of the external glycoprotein of human immunodeficiency virus type 1. Journal of Virology 64, 5840-5850.
35. Simmonds, P., Balfe, P., Peutherer, J. F., Ludlam, C. A., Bishop, J. O. & Leigh Brown, A. J. (1990 b). Human immunodeficiency virus-infected individuals contain provirus in small numbers of peripheral mononuclear cells and at low copy numbers. Journal of Virology 64, 864-872.
36. Simmonds, P., Zhang, L. Q., McOmish, F., Balfe, P., Ludlam, C. A. & Leigh Brown, A. J. (1991). Discontinuous sequence change of human immunodeficiency virus (HIV) type 1 env sequences in plasma viral and lymphocyte-associated proviral populations in vivo: implications for models of HIV pathogenesis. Journal of Virology 65, 6266-6276.
37. Toohey, K., Wehrly, K., Nishio, J., Perryman, S. & Chesebro, B. (1995). Human immunodeficiency virus envelope V1 and V2 regions influence replication efficiency in macrophages by affecting virus spread. Virology 213, 70-79.
38. van Tijn, D. A., Boucher, C. A., Bakker, M. & Goudsmit, J. (1989). Antigenicity of linear B-cell epitopes in the C1, V1, and V3 region of HIV-1 gp 120. Journal of Acquired Immune Deficiency Syndromes 2, 303-306.
39. Vazeux, R., Brousse, N., Jarry, A., Henin, D., Marche, C., Vedrenne, C., Mikol, J., Wolff, M., Michon, C., Rozenbaum, L. & Brahic, M. (1987). AIDS subacute encephalitis: identification of HIV infected cells. American Journal of Pathology 126, 403-410.
40. Wang, N., Zhu, T. F. & Ho, D. D. (1995). Sequence diversity of V1 and V2 domains of gp120 from human immunodeficiency virus type 1: lack of correlation with viral phenotype. Journal of Virology 69, 2708-2715.
41. Warrier, S. V., Pinter, A., Honnen, W. J., Girard, M., Muchmore, E. & Tilley, S. A. (1994). A novel, glycan-dependent epitope in the V2 domain of human immunodeficiency virus type 1 gpr120 is recognized by a highly potent, neutralizing chimpanzee monoclonal antibody. Journal of Virology 68, 4636-4642.
42. Wei, X. P., Ghosh, S. K., Taylor, M. E., Johnson, V. A., Emini, E. A., Deutsch, P., Lifson, J. D., Bonhoeffer, S., Nowak, M. A., Hahn, B. H., Saag, M. S. & Shaw, G. M. (1995). Viral dynamics in human immunodeficiency virus type 1 infection. Nature 373, 117-122.
43. Wolinsky, S. M., Korber, B. T. M., Neumann, A. U., Daniels, M., Kunstman, K. J., Whetsell, A. J., Furtado, M. R., Cao, Y. Z., Ho, D. D., Safrit, J. T. & Koup, R. A. (1996). Adaptive evolution of human immunodeficiency virus-type 1 during the natural course of infection. Science 272, 537-542.
44. Wong, J., Ignacio, C., Torriani, F., Havlir, D., Fitch, N. J. S. & Richman, D. D. (1997). In vivo compartmentalization of human immunodeficiency virus: evidence from the examination of pol sequences from autopsy tissues. Journal of Virology 71, 2059-2071.