Common modular structure of lentivirus LTRs

Virology

Volumn 224, Issue 1, 1996, Pages 256-267

  Frech, Kornelie ^a   Brack Werner, Ruth ^a   Werner, Thomas ^a  

^a INSTITUTE OF EPIDEMIOLOGY   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; LENTIVIRINAE; LONG TERMINAL REPEAT; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; PRIORITY JOURNAL; TRANSCRIPTION REGULATION;

BOVINE LEUKEMIA VIRUS; HTLV; LENTIVIRUS; PRIMATES; UNIDENTIFIED RETROVIRUS;

EID: 0030273418     PISSN: 00426822     EISSN: None     Source Type: Journal    
DOI: 10.1006/viro.1996.0527     Document Type: Article

References (43)

1. Bandelt, H.-J., and Dress, A. (1992). Split decomposition: A new and useful approach to phylogenetic analysis of distance data. Mol. Phylogenet. Evol. 1, 242-252.
2. Berkhout, B., Klaver, B. E. P., and Das, A. T. (1995). A conserved hairpin structure predicted for the poly(A) signal of human and simian immunodeficiency viruses. Virology 201, 276-281.
3. Campbell, B. J., Thompson, D. R., Williams, J. R., Campbell, S. G., and Avery, R. J. (1993). Characterization of a New York ovine Lentivirus isolate. J. Gen. Virol. 74, 201-210.
4. Carpenter, S., Nadin-Davis, S. A., Wannemuehler, Y., and Roth, J. A. (1993). Identification of transactivation-response sequences in the long terminal repeat of bovine Immunodeficiency-like virus. J. Virol. 67, 4399-4403.
5. Cooney, A. J., Tsai, S. Y., Omalley, B. W., and Tsai, M. J. (1991). Chicken ovalbumin upstream promoter transcription factor binds to a negative regulatory region in the human immunodeficiency virus type-1 long terminal repeat. J. Virol. 65, 2853-2860.
6. Cullen, B. R., and Garrett, E. D. (1992). A comparison of regulatory features in primate Lentiviruses. AIDS Res. Human Retroviruses 8, 387-393.
7. Fong, S. E., Pallansch, L. A., Mikovits, J. A., Lackman-Smith, C. S., Ruscetti, F. W., and Gonda, M. S. (1995). cis-acting regulatory elements in the bovine immunodeficiency virus long terminal repeat. Virology 209, 604-614.
8. Frech, K., Herrmann, G., and Werner, T. (1993). Computer-assisted prediction, classification, and delimitation of protein binding sites in nucleic acids. Nucleic Acids Res. 21, 1655-1664.
9. Gabuzda, D. H., Hess, J. L., Small, J. A., and Clements, J. E. (1989). Regulation of the Visna virus long terminal repeat in macrophages involves cellular factors that bind sequences containing AP-1 sites. Mol. Cell. Biol. 9, 2728-2733.
10. Gao, F., Yue, L., White, A. T., Pappas, P. G., Barchue, J., Hanson, A. P., Greene, B. M., Sharp, P. M., Shaw, G. M., and Hahn, B. H. (1992). Human infection by genetically-diverse SIVsm-related HIV-2 in West Africa. Nature 358, 495-499.
11. Garcia, J. A., Harrich, D., Soultanakis, E., Wu, D., Mitsuyasu, R., and Gaynor, R. B. (1989). Human immunodeficiency virus type 1 LTR TATA and TAR region sequences required for transcriptional regulation. EMBO J. 8, 765-778.
12. Gaynor, R. (1992). Cellular transcription factors involved in the regulation of HIV-1 gene expression. AIDS 6, 347-363.
13. Gürtler, L. G., Hauser, P. H., Eberle, J., von Brunn, A., Knapp, S., Zekeng, L., Tsague, J. M., and Kaptue, L. (1994). A new subtype of human immunodeficiency virus type 1 (Mvp-5180) from Cameroon. J. Virol. 68, 1581-1585.
14. Hess, J. L., Pyper, J. M., and Clements, J. E. (1986). Nucleotide sequence and transcriptional activity of the caprine arthritis-encephalitis virus long terminal repeat. J. Virol. 60, 385-393.
15. Hirsch, V. M., Olmsted, R. A., Murphy-Corb, M., Purcell, R. H., and Johnson, P. R. (1989). An African primate Lentivirus (SIVsm) closely related to HIV-2. Nature 339, 389-392.
16. Hirsch, V. M., Dapolito, G. A., Goldstein, S., McClure, H., Emau, P., Fultz, P. N., Isahakia, M., Lenroot, R., Myers, G., and Johnson, P. R. (1993). A distinct african Lentivirus from Sykes' monkeys. J. Virol. 67, 1517-1528.
17. Huet, T., Cheynier, R., Meyerhans, A., Roelants, G., and Wain-Hobson, S. (1990). Genetic organization of a chimpanzee Lentivirus related to HIV-1. Nature 345, 356-359.
18. Jin, M. J., Hui, H., Robertson, D. L., Muller, M. C., Barre-Sinoussi, F., Hirsch, V. M., Allan, J. S., Shaw, G. M., Sharp, P. M., and Hahn, B. H. (1994). Mosaic genome structure of simian immunodeficiency virus from west African green monkeys. EMBO J. 13, 2935-2947.
19. Joag, S. V., Stephens, E. B., and Narayan, O. (1996). Lentiviruses. In Fields Virology (B. N. Fields, D. M. Knipe, P. M. Howley, R. M. Chanock, J. L. Melnick, T. P. Monath, B. Roizman, and S. E. Straus, Eds.), 3rd ed., Lippcott-Raven, Philadelphia.
20. Johnson, P. R., Fomsgaard, A., Allan, J. S., Gravell, M., London, W. T., Olmstead, R. A., and Hirsch, V. M. (1990). Simian immunodeficiency viruses from African green monkeys display unusual genetic diversity. J. Virol. 64, 1086-1092.
21. Keller, A., Garrett, E. D., and Cullen, B. R. (1992). The bel-1 protein of human foamy virus activates human immunodeficiency virus type-1 gene expression via a novel DNA target site. J. Virol. 66, 3946-3949.
22. Kestler, H. W., Li, Y., Naidu, Y. M., Butler, C. V., Ochs, M. F., Jaenel, G., King, N. W., Daniel, M. D., and Desrosiers, R. C. (1988). Comparison of Simian immunodeficiency virus isolates. Nature 331, 619-622.
23. Kirchhoff, F., Jentsch, K., Bachmann, B., Stuke, A., Laloux, C., Lueke, W., Stahl-Henning, C., Schneider, J., Nieselt, K., Eigen, M., and Hunsmann, G. (1990). A novel proviral clone of HIV-2: Biological and phylogenetic relationship to other primate immunodeficiency viruses. Virology 177, 305-311.
24. Koken, S. E. C., Vanwamel, J. L. B., Goudsmit, J., Berkhout, B., and Geelen, J. L. M. C. (1992). Natural variants of the HIV-1 long terminal repeat - Analysis of promoters with duplicated DNA regulatory motifs. Virology 191, 968-972.
25. Langley, R. J., Hirsch, V. M., O'Brien, S. J., Adger-Johnson, D., Goeken, R. M., and Olmsted, R. A. (1994). Nucleotide sequence analysis of puma Lentivirus (PLV-14): Genomic organization and relationship to other lentiviruses. Virology 202, 853-864.
26. Levy, J. A. (1994). HIV and the Pathogenesis of AIDS. American Society of Microbiology Press, Washington, DC.
27. Lu, Y., Stenzel, M., Sodroski, J. G., and Haseltine, W. A. (1989). Effects of long terminal repeat mutations on human immunodeficiency virus type 1 replication. J. Virol. 63, 4115-4119.
28. Myers, G., Wain-Hobson, S., Henderson, L. E., Korber, B., Jeang, K.-T., and Pavlakis, G. N. (1994). Human Retroviruses and AIDS 1994. A Compilation and Analysis of Nucleic Acid and Amino Acid Sequences. Database of the Los Alamos National Laboratory.
29. Narayan, O., and Clements, J. E. (1989). Review article: Biology and pathogenesis of lentiviruses. J. Gen. Virol. 70, 1617-1639.
30. Olmstead, R. A., Barnes, A. K., Yamamoto, J. K., Hirsch, V. M., Purcell, R. H., and Johnson, P. R. (1989). Molecular cloning of feline immunodeficiency virus. Proc. Natl. Acad. Sci. USA 86, 2448-2452.
31. Perkins, N. D., Edwards, N. L., Duckett, C. S., Agranoff, A. B., Schmid, R. M., and Nabel, G. J. (1993). A cooperative interaction between NF-kappaB and SP1 is required for HIV-1 enhancer activation. EMBO J. 9, 3551-3558.
32. Perkins, N. D., Agranoff, A. B., Duckett, C. S., and Nabel, G. J. (1994). Transcription factor AP-2 regulates human immunodeficiency virus type 1 gene expression. J. Virol. 68, 6820-6823.
33. Perry, S. T., Flaherty, M. T., Kelley, M. J., Clabough, D. L., Tronick, S. R., Coggins, L., Whetter, L., Lengel, C. R., and Fuller, F. (1992). The surface envelope protein gene region of equine infectious anemia virus is not an important determinant of tropism in vitro. J. Virol. 66, 4085-4097.
34. Quandt, K., Frech, K., Karas, H., Wingender, E., and Werner, T. (1995). Matlnd and Matlnspector - New fast and versatile tools for detection of consensus matches in nucleotide sequence data. Nucleic Acids Res. 23, 4878-4884.
35. Quandt, K., Grote, K., and Werner, T. (1996). Genomelnspector: Basic software tools for analysis of spatial correlations between genomic structures within megabase sequences. Genomics 33, 301-304.
36. Querat, G., Audoly, G., and Sonigo, P. (1990). Nucleotide sequence analysis of SA-OMVV, a visna-related ovine Lentivirus: Phylogenetic history of lentiviruses. Virology 175, 434-447.
37. Sargan, D. R., Sutton, K. A., Bennett, I. D., McConnell, I., and Harkiss, G. D. (1995). Sequence and repeat structure variants in the long terminal repeat of maedi-visna virus EV1. Virology 208, 343-348.
38. Sonigo, P., Alizon, M., Staskus, K., Klatzmann, D., Cole, S., Danos, O., Retzel, E., Tiollas, P., Haase, A., and Wain-Hobson, S. (1985). Nucleotide sequence of the Visna lentivirus: Relationship to the AIDS virus. Cell 42, 369-382.
39. Tomonaga, K., Katahira, J., Fukasawa, M., Ahmed, H. M., Kawamura, M., Akari, H., Miura, T., Goto, T., Nakai, M., Suleman, M., et al. (1993). Isolation and characterization of simian immunodeficiency virus from African white-crowned mangabey monkeys (Cercocebus torquatus lunulatus). Arch. Virol. 129, 77-92.
40. Tsujimoto, H., Hasegawa, A., Maki, N., Fukasawa, M., Miura, T., Speidel, S., Cooper, R. W., Moriyama, E. N., Gojobori, T., and Hayami, M. (1989). Sequence of a novel simian immunodeficiency virus from a wild-caught African mandrill. Nature 341, 539-541.
41. Wain-Hobson, S., Sonigo, P., Danos, O., Cole, S., and Alizon, M. (1985). Nucleotide sequence of the AIDS virus, LAV. Cell 40, 9-17.
42. Wolfertstetter, F., Frech, K., Herrmann, G., and Werner, T. (1996). Identification of functional elements in unaligned nucleic acid sequences by a novel tuple search algorithm. Comp. Appl. Biosci. 12, 71-80.
43. Yang, Z. Y., and Engel, J. D. (1993). Human T-Cell transcription factor GATA-3 stimulates HIV-1 expression. Nucleic Acids Res. 21, 2831-2836.