Positive selection and rates of evolution in immunodeficiency viruses from humans and chimpanzees

Proceedings of the National Academy of Sciences of the United States of America

Volumn 93, Issue 8, 1996, Pages 3284-3288

  Mindell, David P ^a  

^a UNIVERSITY OF MICHIGAN   (United States)

Author keywords

human immunodeficiency virus; immune surveillance; positive selection; relative rates of evolution; speciational evolution

Indexed keywords

GAG PROTEIN; GLYCOPROTEIN GP 120; VIRUS ENVELOPE PROTEIN;

AMINO ACID SUBSTITUTION; ARTICLE; CHIMPANZEE; EVOLUTION; GENETIC DRIFT; HUMAN IMMUNODEFICIENCY VIRUS; NATURAL SELECTION; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; PRIORITY JOURNAL;

ANIMALS; EVOLUTION; GENES, ENV; GENES, GAG; GENES, POL; HIV-1; HUMANS; PAN TROGLODYTES; PHYLOGENY; SELECTION (GENETICS); SIMIAN IMMUNODEFICIENCY VIRUS; SPECIES SPECIFICITY; TIME FACTORS; VARIATION (GENETICS);

EID: 0029995194     PISSN: 00278424     EISSN: None     Source Type: Journal    
DOI: 10.1073/pnas.93.8.3284     Document Type: Article

References (40)

1. Louwagie, J., McCutchan, F., van der Groen, G., Peeters, M., Fransen, K., Piot, P., Gershy-Damet, G.-M., Roelants, G., van Heuverswyn, H., Eddy, G., Ungar, B. & Burke, D. (1992) AIDS Res. Hum. Retroviruses 8, 1467-1469.
2. Louwagie, J., McCutchan, F., Peeters, M., Brennan, T. P., Sanders-Buell, E., Eddy, G., van der Groen, G., Fransen, K., Gershy-Damet, G.-M., Deleys, R. & Burke, D. (1993) AIDS 7, 769-780.
3. Myers, G. (1994) AIDS Res. Hum. Retroviruses 10, 1317-1324.
4. Shpaer, E. G. & Mullins, J. I. (1993) J. Mol. Evol. 37, 57-65.
5. Phillips, R. E., Rowland Jones, S., Nixon, D. F., Gotch, F. M., Edwards, J. P., Ogunlesi, A. O., Elvin, J. G., Rothhard, J. A., Bangham, C. R., Rizza, C. R. & McMichael, A. J. (1991 ) Nature (London) 354, 453-459.
6. Seibert, S. A., Howell, C. Y., Hughes, M. K. & Hughes, A. L. (1995) Mol. Biol. Evol. 12, 803-813.
7. Holmes, E. C., Zhang, L. Q., Simmonds, P., Ludlam, C. A. & Leigh Brown, A. J. (1992) Proc. Natl. Acad. Sci. USA 89, 4835-4839.
8. Leigh Brown, A. J. & Holmes, E. C. (1994). Annu. Rev. Ecol Syst. 25, 127-165.
9. Holmes, E. C., Zhang, L. Q., Robertson, P., Cleland, A., Harvey, E., Simmonds, P. & Leigh Brown, A. J. (1995) J. Infect. Dis. 171, 45-53.
10. Boucher, C. A., O'Sullivan, E., Mulder, J. W., Ramautarsing, C., Kellam, P., Darby, G., Lange, J. M., Goudsmit, J. & Larder, B. A. (1992) J. Infect. Dis. 165, 105-110.
11. Levin, S. A. & Pimentel, D. (1981) Am. Nat. 117, 308-315.
12. Anderson, R. M. & May, R. M. (1991) Infectious Diseases of Humans: Dynamics and Control (Oxford Univ. Press, New York).
13. Ewald, P. W. (1994) The Evolution of Infectious Disease (Oxford Univ. Press, New York).
14. Gould, S. J. & Eldredge, N. (1993) Nature (London) 366, 223-227.
15. Mindell, D. P., Shultz, J. W. & Ewald, P. W. (1995) Syst. Biol. 44, 77-92.
16. Higgins, D., Bleasby, A. J. & Fuchs, R. (1992) Comput. Appl. Biosci. 8, 189-191.
17. Eernisse, D. J. (1992) Comput. Appl. Biosci. 8, 177-184.
18. Myers, G., Korber, B., Wain-Hobson, S., Jeang, K.-T., Henderson, L. E. & Pavlakis, G. N., eds. (1994) Human Retroviruses and AIDS: A Compilation and Analysis of Nucleic Acid and Amino Acid Sequences (Los Alamos National Laboratory, Los Alamos, NM).
19. Bremer, K. (1988) Evolution 42, 795-803.
20. Peeters, M., Fransen, K., Delaporte, E., Vanden Hacsevelde, M., Gershy-Damet, G.-M., Destens, L., van der Groen, G. & Piot, P. (1992) AIDS 6, 447-451.
21. Swofford, D. L. (1993) PAUP (distributed by the Illinois Natural History Survey, Champaign), Version 3.1.1.
22. Burns, D. P. W. & Desrosiers. R. C. (1991) J. Virol. 65, 1843-1854.
23. Simmonds, P., Balfe, P., Ludlam, C. A., Bishop, J. O. & Leigh Brown, A. J. (1990) J. Virol. 64, 5840-5850.
24. Hughes, A. L. & Nei, M. (1989) Proc. Natl. Acad. Sci. USA 86, 958-962.
25. Mindell, D. P. & Honeycutt, R. L. (1990) Annu. Rev. Ecol. Syst. 21, 541-566.
26. McClure, M. A., Johnson, M. S., Feng, D.-F. & Doolittle, R. F. (1988) Proc. Natl. Acad. Sci. USA 85, 2469-2473.
27. Kumar, S., Tamura, K. & Nei, M. (1993) MOLECULAR EVOLUTIONARY GENETICS ANALYSIS (The Pennsylvania State Univ., University Park), Version 1.01.
28. Coffin, J. M. (1992) Curr. Top. Microbiol. Immunol. 176, 143-163.
29. Plummer, F. A., Simonsen, J. N., Cameron, D. W., Ndinya-Achola, J. O., Kreiss, J. K., Gakinya, M. N., Waiyaki, P., Cheang, M., Piot, P., Ronald, A. R. & Ngugi, E. N. (1991) J. Infect. Dis. 163, 233-239.
30. Hunter, D. J. & Maggwa, B. N. (1994) AIDS 8, 93-99.
31. Levy, J. A. (1994) HIV and the Pathogenesis of AIDS (Am. Soc. Microbiol. Press. Washington, DC).
32. Robertson, D. L., Sharp, P. M., McCutchan, F. E. & Hahn, B. H. (1995) Nature (London) 374, 124-126.
33. Domingo, E. & Holland, J. J. (1994) in The Evolutionary Biology of Viruses, ed. Morse, S. S. (Raven, New York), pp. 161-184.
34. Steinhauer, D. A. & Holland, J. J. (1987) Annu. Rev. Microbiol. 41, 409-433.
35. Gammelin, M., Altmüller, A., Reinhardt, U., Mandler, J., Harley, V. R., Hudson, P. J. & Fitch, W. M. (1990) Mol. Biol. Evol. 7, 194-200.
36. Gorman, O. T., Bean, W. J., Kawaoka, T., Donatelli, I., Yuanji, G. & Webster, R. G. (1992) J. Virol. 65, 3704-3714.
37. Cichutek, K., Norley, S., Linde, R., Kreuz, W., Gahr, M., Lower, J., von Wangenheim, G. & Kurth, R. (1991) AIDS 5, 1185-1187.
38. Kawaoka, Y. & Webster, R. G. (1988) Microb. Pathogen. 5, 311-318.
39. Futuyma, D. J. (1987) Am. Nat. 130, 465-473.
40. Lenski, R. E. & Travisano, M. (1994) Proc. Natl. Acad. Sci. USA 91, 6808-6814.