Investigation of the dynamics of the spread of human immunodeficiency virus to brain and other tissues by evolutionary analysis of sequences from the p17(gag) and env genes

Journal of Virology

Volumn 71, Issue 2, 1997, Pages 1272-1280

  Hughes, E S ^a   Bell, J E ^a   Simmonds, P ^a  

^a UNIVERSITY OF EDINBURGH   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

GAG PROTEIN; PROTEIN P17; UNCLASSIFIED DRUG;

ACQUIRED IMMUNE DEFICIENCY SYNDROME; ARTICLE; GENE AMPLIFICATION; HUMAN; HUMAN CELL; HUMAN IMMUNODEFICIENCY VIRUS; MOLECULAR DYNAMICS; MOLECULAR EVOLUTION; PHYLOGENY; PRIORITY JOURNAL; SEQUENCE ANALYSIS; VIRUS INFECTIVITY;

EID: 0031014021     PISSN: 0022538X     EISSN: None     Source Type: Journal    
DOI: 10.1128/jvi.71.2.1272-1280.1997     Document Type: Article

References (51)

1. Ball, J. K., E. C. Holmes, H. Whitwell, and U. Desselberger. 1994. Genomic variation of human immunodeficiency virus type 1 (HIV-1)-molecular analyses of HIV-1 in sequential blood samples and various organs obtained at autopsy. J. Gen. Virol. 75:867-879.
2. Bednarik, D. P., and T. M. Folks. 1992. Mechanisms of HIV-1 latency. AIDS 6:3-16.
3. Carrillo, A., and L. Ratner. 1996. Human immunodeficiency type 1 tropism for T-lymphoid cell lines: role of the V3 loop and C4 envelope determinants. J. Virol. 70:1301-1309.
4. Carrillo, A., and L. Ratner. 1996. Cooperative effects of the human immunodeficiency virus type 1 envelope variable loops V1 and V3 in mediating infectivity for T cells. J. Virol. 70:1310-1316.
5. Chesebro, B., K. Wehrly, J. Nishio, and S. Ferryman. 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. J. Virol. 66:6547-6554.
6. Coffin, J. M. 1979. Review. Structure, replication, and recombination of retrovirus genomes: some unifying hypotheses. J. Gen. Virol. 42:1-26.
7. Di Stefano, M., S. Wilt, F. Gray, M. Dubois Dalcq, and F. Chiodi. 1996. HIV-1 V3 sequences and the development of dementia during AIDS. AIDS Res. Hum. Retroviruses 12:471-476.
8. Donaldson, Y. K., J. E. Bell, E. C. Holmes, E. S. Hughes, H. K. Brown, and P. Simmonds. 1994. In vivo distribution and cytopathology of variants of human immunodeficiency virus type 1 showing restricted sequence variability in the v3 loop. J. Virol. 68:5991-6005.
9. Donaldson, Y. K., J. E. Bell, J. W. Ironside, R. P. Brettle, J. R. Robertson, A. Busuttil, and P. Simmonds. 1994. Redistribution of HIV outside the lymphoid system with onset of AIDS. Lancet 343:382-385.
10. Epstein, L. G., C. Kuiken, B. M. Blumberg, S. Hartman, L. R. Sharer, M. Clement, and J. Goudsmit. 1991. HIV-1 V3 domain variation in brain and spleen of children with AIDS: tissue-specific evolution within host-determined quasispecies. Virology 180:583-590.
11. Fauci, A. S. 1993. Immunopathogenesis of HIV infection. J. Acquired Immune Defic. Syndr. 6:655-662.
12. Felsenstein, J. 1989. PHYLIP-phylogeny inference package (version 3.2). Cladistics 5:164-166.
13. Gojobori, T., E. N. Moriyama, and M. Kimura. 1990. Molecular clock of viral evolution, and the neutral theory. Proc. Natl. Acad. Sci. USA 87:10015-10018.
14. Ho, D. D., A. U. Neumann, A. S. Perelson, W. Chen, J. M. Leonard, and M. Markowitz. 1995. Rapid turnover of plasma virions and CD4 lymphocytes in HIV-1 infection. Nature 373:123-126.
15. Holmes, E. C., L. Q. Zhang, P. Robertson, A. Cleland, E. Harvey, P. Simmonds, and A. J. L. Brown. 1995. The molecular epidemiology of human immunodeficiency virus type 1 in Edinburgh. J. Infect, Dis. 171:45-53.
16. Holmes, E. C., L. Q. Zhang, P. Simmonds, C. A. Ludlam, and A. J. Leigh Brown. 1992. Convergent and divergent sequence evolution in the surface envelope glycoprotein of human immunodeficiency virus type 1 within a single infected patient. Proc. Natl. Acad. Sci. USA 89:4835-4839.
17. Holmes, E. C., L. Q. Zhang, P. Simmonds, A. S. Rogers, and A. J. L. Brown. 1993. Molecular investigation of human immunodeficiency virus (HIV) infection in a patient of an HIV-infected surgeon. J. Infect. Dis. 167:1411-1414.
18. Hughes, E. S., et al. Unpublished data.
19. Hwang, S. S., T. J. Boyle, H. K. Lyerly, and B. R. Cullen. 1991. Identification of the envelope V3 loop as the primary determinant of cell tropism in HIV-1. Science 253:71-74.
20. Kasper, P., R. Kaiser, J. Oldenburg, H. H. Brackmann, B. Matz, and K. E. Schneweis. 1994. Parallel evolution in the V3 region of HIV type 1 after infection of hemophiliacs from a homogeneous source. AIDS Res. Hum. Retroviruses 10:1669-1678.
21. Kasper, P., P. Simmonds, K. E. Schneweis, R. Kaiser, B. Matz, J. Oldenburg, H. H. Brackmann, and E. C. Holmes. 1995. The genetic diversification of the HIV type 1 gag p17 gene in patients infected from a common source. AIDS Res. Hum. Retroviruses 11:1197-1201.
22. Keys, B., J. Karis, B. Fadeel, A. Valentin, G. Norkrans, L. Hagberg, and F. Chiodi. 1993. V3 sequences of paired HIV-1 isolates from blood and cerebrospinal fluid cluster according to host and show variation related to the clinical stage of disease. Virology 196:475-483.
23. Koito, A., G. Harrowe, J. A. Levy, and C. Cheng-Mayer. 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. J. Virol. 68:2253-2259.
24. Korber, B. T. M., K. J. Kunstman, B. K. Patterson, M. Furtado, M. M. McEvilly, R. Levy, and S. M. Wolinsky. 1994. Genetic differences between blood- and brain-derived viral sequences from human immunodeficiency virus type 1-infected patients: evidence of conserved elements in the V3 region of the envelope protein of brain-derived sequences. J. Virol. 68:7467-7481.
25. Koyanagi, Y., S. Miles, R. T. Mitsuyasu, J. E. Merrill, H. V. Vinters, and I. S. Chen. 1987. Dual infection of the central nervous system by AIDS viruses with distinct cellular tropisms. Science 236:819-822.
26. Kumar, S., K. Tamura, and M. Nei. 1993. MEGA: molecular evolutionary genetics analysis, version 1.0. The Pennsylvania State University, University Park.
27. Li, W. H., M. Tanimura, and P. M. Sharp. 1988. Rates and dates of divergence between AIDS virus nucleotide sequences. Mol. Biol. Evol, 5:313-330.
28. Liu, Z. Q., C. Wood, J. A. Levy, and C. Cheng-Mayer. 1990. The viral envelope gene is involved in macrophage tropism of a human immunodeficiency virus type 1 strain isolated from brain tissue. J. Virol. 64:6148-6153.
29. Miedema, F., M. Tersmette, and R. A. W. Van Lier. 1990. AIDS pathogenesis: a dynamic interaction between HIV and the immune system. Immunol. Today 11:293-297.
30. Millich, L., B. Margolin, and R. Swanstrom. 1993. V3 loop of the human immunodeficiency virus type 1 env protein: interpreting sequence variability. J. Virol. 67:5623-5634.
31. Moore, J. P., M. Thali, B. A. Jameson, F. Vignaux, G. K. Lewis. S. W. Poon, M. Charles, M. S. Fung, B. Sun, P. J. Durda, L. Akerblom, B. Wahren, D. D. Ho, Q. J. Sattentau, and J. Sodoroski. 1993. Immunochemical analysis of the gp120 surface glycoprotein of human immunodeficiency virus type 1: probing the structure of the C4 and V4 domains and the interaction of the C4 domain with the V3 loop. J. Virol. 67:4785-4796.
32. Morris, J. F., E. J. Sternberg, L. Gutshall, S. R. Petteway, and L. A. Ivanoff. 1994. Effect of a single amino acid substitution in the V3 domain of the human immunodeficiency virus type 1: generation of revertant viruses to overcome defects in infectivity in specific cell types. J. Virol. 68:8380-8385.
33. Morrison, H. G., F. Kirchhoff, and R. C. Desrosiers. 1993. Evidence for the cooperation of gp120 amino acids 322 and 448 in SIVmac entry. Virology 195:167-174.
34. Myers, G., B. Korber, J. Berzotsky, T. F. Smith, and G. N. Pavlakis. 1991. Human retroviruses and AIDS 1993. Los Alamos National Laboratory, Los Alamos, N. Mex.
35. Myers, G., and G. N. Pavlakis. 1992. Evolutionary potential of complex retroviruses, p. 51-105. In J. A. Levy (ed.), The retroviridae, volume 1. Plenum Press, New York, N.Y.
36. Pantaleo, G., C. Graziosi, J. F. Demarest, L. Butini, M. Montroni, C. H. Fox, J. M. Orestein, D. P. Kotler, and A. S. Fauci. 1993 HIV infection is active and progressive in lymphoid tissue during the clinically latent stage of disease. Nature 362:355-358.
37. Phillips, R. E., S. Rowland Jones, D. F. Nixon, F. M. Gotch, J. P. Edwards, A. O. Ogunlesi, J. G. Elvin, J. A. Rothbard, C. R. Bangham, and C. R. Rizza. 1991. Human immunodeficiency virus genetic variation that can escape cytotoxic T cell recognition. Nature 354:453-459.
38. Power, C., J. C. Mcarthur, R. T. Johnson, D. E. Griffin, J. D. Glass, S. Perryman, and B. Chesebro. 1994. Demented and nondemented patients with AIDS differ in brain-derived human immunodeficiency virus type 1 envelope sequences. J. Virol. 68:4643-4649.
39. Price, R. W., B. Brew, J. Sidtis, M. Rosenblum, A. C. Scheck, and P. Cleary. 1988. The brain in AIDS: central nervous system HIV-1 and AIDS dementia complex. Science 239:586-592.
40. Reddy, T. R., C. L. Achim, D. A. Sirko, S. Tehranchi, F. G. Kraus, F. Wong-Staal, and C. A. Wiley. 1996. Sequence analysis of the V3 loop in brain and spleen of patients with HIV encephalitis. AIDS Res. Hum. Retroviruses 12:477-482.
41. Rey, F., D. Salaun, J. L. Lesbordes, S. Gadelle, F. Ollivier-Henry, F. Barre-Sinoussi, J. Chermann, and A. J. Georges. 1986. HIV-I and HIV-II double infection in Central African Republic. Lancet 2:1391-1392.
42. Shioda, T., J. A. Levy, and C. Cheng-Mayer. 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. Proc. Natl. Acad. Sci. USA 89:9434-9438.
43. Shioda, T., S. Oka, S. Ida, K. Nokihara, H. Toriyoshi, S. Mori, Y. Takebe, S. Kimura, K. Shimada, and Y. Nagai. 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. J. Virol. 68:7689-7696.
44. Simmonds, P., P. Balfe, J. F. Peutherer, C. A. Ludlam, J. O. Bishop, and A. J. Leigh Brown. 1990. Human immunodeficiency virus-infected individuals contain provirus in small numbers of peripheral mononuclear cells and at low copy numbers. J. Virol. 64:864-872.
45. Stamatatos, L., and C. Cheng-Mayer. 1993. Evidence that the structural conformation of envelope gp120 affects human immunodeficiency virus type 1 infectivity, host range, and syncytium-forming ability. J. Virol. 67:5635-5639.
46. Strappe, P. M., et al. Unpublished data.
47. Vazeux, R., N. Brousse, A. Jarry, D. Henin, C. Marche, C. Vedrenne, J. Mikol, M. Wolff, C. Michon, L. Rozenbaum, and M. Brahic. 1987. AIDS subacute encephalitis: identification of HIV infected cells. Am. J. Pathol. 126:403-410.
48. Wei, X. P., S. K. Ghosh, M. E. Taylor, V. A. Johnson, E. A. Emini, P. Deutsch, J. D. Lifson, S. Bonhoeffer, M. A. Nowak, B. H. Hahn, M. S. Saag, and G. M. Shaw. 1995. Viral dynamics in human immunodeficiency virus type 1 infection. Nature 373:117-122.
49. Westervelt, P., H. E. Gendelman, and L. Ratner. 1991. Identification of a determinant within the human immunodeficiency virus 1 surface envelope glycoprotein critical tor productive infection of primary monocytes. Proc. Natl. Acad. Sci. USA 88:3097-3101.
50. Wolfs, T. F. W., J. J. de Jong, H. Van den Berg, J. M. Tijnagel, W. J. Krone, and J. Goudsmit. 1990. Evolution of sequences encoding the principal neutralization epitope of human immunodeficiency virus 1 is host dependent, rapid, and continuous. Proc. Natl. Acad. Sci. USA 87:9938-9942.
51. Wyatt, R., M. Thali, S. Tilley, A. Pinter, M. Posner, D. Ho, J. Robinson, and J. Sodroski. 1992. Relationship of the human immunodeficiency virus type 1 gp120 third variable loop to a component of the CD4 binding site in the fourth conserved region. J. Virol. 66:6997-7004.