Natural selection of the Pol gene of bovine immunodeficiency virus

Virology

Volumn 255, Issue 2, 1999, Pages 294-301

  Cooper, Carlton R ^b   Hanson, Larry A ^b   Diehl, Walter J ^a   Pharr, G Todd ^b   Coats, Karen S ^a  

^a MISSISSIPPI STATE UNIVERSITY   (United States)

^b MISSISSIPPI STATE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACID SEQUENCE; ARTICLE; BOVINE IMMUNODEFICIENCY LIKE VIRUS; DNA POLYMORPHISM; GENE AMPLIFICATION; GENETIC ANALYSIS; GENETIC VARIABILITY; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; PRIORITY JOURNAL; SEQUENCE ANALYSIS; STRUCTURAL GENE;

ANIMALIA; BOS TAURUS; BOVINAE; BOVINE IMMUNODEFICIENCY VIRUS; BOVINE IMMUNODEFICIENCY-LIKE VIRUS; DARWINIA; HUMAN IMMUNODEFICIENCY VIRUS 1; LENTIVIRUS; RNA VIRUSES;

EID: 0033558753     PISSN: 00426822     EISSN: None     Source Type: Journal    
DOI: 10.1006/viro.1998.9572     Document Type: Article

References (32)

1. Burke D. K. Recombination in HIV: An important viral evolutionary strategy. Emer. Infect. Dis. 3:1997;253-259.
2. Coffin J. M. Genetic diversity and evolution of retroviruses. Curr. Top. Microbiol. Immunol. 176:1992;143-164.
3. Felsenstein, J. 1993, PHYLIP (Phylogeny Inference Package), version 3.5c, Department of Genetics, University of Washington, Seattle.
4. Fouchier R. A. M., Groenink M., Kootstra N. A., Termette M., Huisman H. G., Miedema F., Schuitemaker H. Phenotype-associated sequence variation in the third variable domain of the human immunodeficiency virus type 1 gp120 molecule. J. Virol. 66:1992;3183-3187.
5. Garvey K. J., Oberste M. S., Elser J. E., Braun M. J., Gonda M. A. Nucleotide sequence and genome organization of biologically active proviruses of the bovine immunodeficiency-like virus. Virology. 175:1990;391-409.
6. Gonda M. A., Luther D. G., Fong S. E., Tobin G. J. Bovine immunodeficiency virus: Molecular biology and virus-host interaction. Virus Res. 32:1994;155-181.
7. Hooker D. J., Tachedjian G., Solomon A. E., Gurusinghe A. D., Land S., Birch C., Anderson J. L., Roy B. M., Arnold E., Deacon N. J. An in vivo mutation from leucine to tryptophan at position 210 in human immunodeficiency virus type 1 reverse transcriptase contributes to high-level resistance to 3′-azido-3′-deoxythymidine. J. Virol. 70:1996;8010-8018.
8. Kohlstaedt L. A., Wang J., Friedman J. M., Rice P. A., Steitz T. A. Crystal structure at 3.5 Å resolution of HIV-1 reverse transcriptase complexed with an inhibitor. Science. 256:1992;1783-1790.
9. Levy J. A. Pathogenesis of human immunodeficiency virus infection. Microbiol. Rev. 57:1993;183-289.
10. McDonald J. H., Kreitman M. Adaptive protein evolution at theadhDrosophila. Nature. 351:1991;652-654.
11. Milich L., Margolin B., Swanstrom R. V3 loop of the human immunodeficiency virus type 1 env protein: Interpreting sequence variability. J. Virol. 67:1993;5623-5634.
12. Mindell D. R. Positive selection and rates of evolution in immunodeficiency viruses from human and chimpanzees. Proc. Natl. Acad. Sci. USA. 93:1996;3284-3288.
13. Mindell D. P., Shultz J. W., Ewald P. W. The AIDS pandemic is new, but is HIV new. Syst. Biol. 44:1995;77-92.
14. Nájera I., Holguín Á, Quiñones-Mateu M. E., Muñoz-Fernández Á. M., Nájera R., López-Galíndez C., Domingo E. Pol. J. Virol. 69:1995;23-31.
15. Nash J. W., Hanson L. A., St. Cyr Coats K. Detection of bovine immunodeficiency virus in peripheral blood and milk-derived leukocytes by use of polymerase chain reaction. Am. J. Vet. Res. 56:1995;445-449.
16. Overbaugh J., Jackson S. M., Papenhausen M. D., Rudensey L. M. Lentiviral genomes with G-to-A hypermutation may result fromTaq. AIDS Res. Hum. Retroviruses. 12:1996;1605-1613.
17. Rozas J., Rozas R. DnaSp version 2.0: A novel software package for extensive molecular population genetics analysis. Comput. Appl. Biosci. 11:1996;307-311.
18. Saiki R. K., Gelfand D. H., Stoffel S., Scharf S. J., Higuchi R., Horn G. T., Mullis K. B., Erlich H. A. Primer-directed enzymatic amplification of DNA with a thermostable DNA polymerase. Science. 239:1988;487-491.
19. Seibert S. A., Howell C. Y., Hughes M. K., Hughes A. L. Natural selection on thegag, pol,env. Mol. Biol. Evol. 12:1995;803-813.
20. Sharp M. P. In search of molecular darwinism. Nature. 385:1997;111-112.
21. Smith D. B., McAllister J., Casino C., Simmonds P. Virus 'quasispecies': Making a mountain out of a molehill. J. Gen. Virol. 78:1997;1511-1519.
22. Smith R. A., Remington K. M., Preston B. D., Schinazi R. F., North T. W. A novel point mutation at position 156 of reverse transcriptase from feline immunodeficiency virus confers resistance to the combination of (-)-β-2′,3′-dideoxy-3′-thiacytidine and 3′-azido-3′-deoxythymidine. J. Virol. 72:1998;2335-2340.
23. Suarez D. L., VanDerMaaten M. J., Whetstone C. A. Improved early and long-term detection of bovine lentivirus by a nested polymerase chain reaction test in experimentally infected calves. Am. J. Vet. Res. 56:1995;579-586.
24. Suarez D. L., Whetstone C. A. Identification of hypervariable and conserved regions in the surface envelope gene in the bovine lentivirus. Virology. 212:1995;728-733.
25. Thompson J. D., Higgins D. G., Gibson T. J. Clustal W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighing, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 22:1994;4673-4680.
26. Tobin G. J., Ennis W. H., Clanton D. J., Gonda M. A. Inhibition of bovine immunodeficiency virus by anti-HIV-1 compounds in a cell culture-based assay. Antiviral Res. 33:1996;21-31.
27. Truyen U., Parrish C. R., Harder T. C., Kaaden O. There is nothing permanent except change. The emergence of new virus diseases. Vet. Microbiol. 43:1995;103-122.
28. Van Der Maaten M. J., Boothe A. D., Seger C. L. Isolation of a virus from cattle with persistent lymphocytosis. J. Natl. Cancer Inst. 49:1972;1649-1657.
29. Wayne M. L., Simonsen K. L. Statistical tests of neutrality in the age of weak selection. Trends Ecol. Evol. 13:1998;236-240.
30. Whetstone C. A., Suarez D. L., Miller J. M., Pesch B. A., Harp J. A. Bovine lentivirus induces early transient B-cell proliferation in experimentally inoculated cattle and appears to be pantropic. J. Virol. 71:1997;640-644.
31. Wolfs T. F., Zwarf G., Bakker M., Valk M., Kuiken C. L., Goudsmit J. Naturally occurring mutation within HIV-1 V3 genomic RNA leads to antigenic variation dependent on a single amino acid substitution. Virology. 185:1991;195-205.
32. Wong J. K., Ignacio C. C., Torriani F., Havlir D., Fitch N. J. S., Richman D. D. In vivo compartmentalization of human immunodeficiency virus: Evidence from the examination ofpol. J. Virol. 71:1997;2059-2071.