Complete nucleotide sequence of the new simian T-lymphotropic virus, STLV-PH969 from a hamadryas baboon, and unusual features of its long terminal repeat

Journal of Virology

Volumn 71, Issue 7, 1997, Pages 5464-5472

  Van Marianne, Brussel ^a   Goubau, Patrick ^a   Rousseau, Robert ^a   Desmyter, Jan ^a   Vandamme, Anne Mieke ^a  

^a UNIVERSITY HOSPITALS LEUVEN   (Belgium)

Author keywords

[No Author keywords available]

Indexed keywords

POLYADENYLIC ACID;

ALTERNATIVE RNA SPLICING; AMINO ACID SEQUENCE; ANIMAL CELL; ARTICLE; BABOON; HUMAN T CELL LEUKEMIA VIRUS 1; HUMAN T CELL LEUKEMIA VIRUS 2; LONG TERMINAL REPEAT; NONHUMAN; OPEN READING FRAME; POLYADENYLATION; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; RETROVIRUS; RNA SPLICING; SEQUENCE ANALYSIS; SEQUENCE HOMOLOGY; TATA BOX; TRANSACTIVATION; VIRUS GENOME; VIRUS ISOLATION; VIRUS REPLICATION;

EID: 1842375077     PISSN: 0022538X     EISSN: None     Source Type: Journal    
DOI: 10.1128/jvi.71.7.5464-5472.1997     Document Type: Article

References (63)

1. Ahmed, Y. F., S. M. Hanly, M. H. Malim, B. R. Cullen, and W. C. Greene. 1990. Structure-function analyses of the HTLV-I Rex and HIV-1 Rev RNA response elements: insights into the mechanism of Rex and Rev action. Genes Dev. 4:1014-1022.
2. Alexandersen, S., S. Carpenter, J. Christensen, T. Storgaard, B. Viuff, Y. Wannemuehler, J. Belousov, and J. A. Roth. 1993. Identification of alternatively spliced mRNAs encoding potential new regulatory proteins in cattle infected with bovine leukemia virus. J. Virol. 67:39-52.
3. Baskerville, S., M. Zapp, and A. D. Ellington. 1995. High-resolution mapping of the human T-cell leukemia virus type 1 Rex-binding element by in vitro selection. J. Virol. 69:7559-7569.
4. Bastian, I., J. Gardner, D. Webb, and I. Gardner. 1993. Isolation of a human T-lymphotropic virus type I strain from Australian aboriginals. J. Virol. 67:843-851.
5. Black, A. C., I. S. Y. Chen, S. Arrigo, C. T. Ruland, T. Allogiamento, E. Chin, and J. D. Rosenblatt. 1991. Regulation of HTLV-II gene expression by Rex involves positive and negative cis-acting elements in the 5′ long terminal repeat. Virology 181:433-444.
6. Black, A. C., C. T. Ruland, M. T. Yip, J. Luo, B. Tran, A. Kalsi, E. Quan, M. Aboud, I. S. Y. Chen, and J. D. Rosenblatt. 1991. Human T-cell leukemia virus type II Rex binding and activity require an intact splice donor site and a specific RNA secondary structure. J. Virol. 65:6645-6653.
7. Black, A. C., J. Luo, C. Watanabe, S. Chun, A. Bakker, J. K. Fraser, J. P. Morgan, and J. D. Rosenblatt. 1995. Polypyrimidine tract-binding protein and heterogeneous nuclear ribonucleoprotein A1 bind to human T-cell leukemia virus type 2 RNA regulatory elements. J. Virol. 69:6852-6858.
8. Bogerd, H. P., L. S. Tiley, and B. R. Cullen. 1992. Specific binding of the human T-cell leukemia virus type I Rex protein to a short RNA sequence located within the Rex-response element. J. Virol. 66:7572-7575.
9. Bonis, J., A. Baillou, F. Barin, M. Verdier, B. Janvier, and F. Denis. 1993. Discrimination between human T-cell lymphotropic virus type I and II (HTLV-I and HTLV-II) infections by using synthetic peptides representing an immunodominant region of the core protein (p 19) of HTLV-I and HTLV-II. J. Clin. Microbiol. 31:1481-1485.
10. Brady, J., K.-T. Jeang, J. Duvall, and G. Khoury. 1987. Identification of p40x-responsive regulatory sequences within the human T-cell leukemia virus type I long terminal repeat. J. Virol. 61:2175-2181.
11. Ciminale, V., G. N. Pavlakis, D. Derse, C. P. Cunningham, and B. K. Felber. 1992. Complex splicing in the human T-cell leukemia virus (HTLV) family of retroviruses: novel mRNAs and proteins produced by HTLV type I. J. Virol. 66:1737-1745.
12. Ciminale, V., D. M. D'Agostino, L. Zotti, G. Franchini, B. K. Felber, and L. Chieco-Bianchi. 1995. Expression and characterization of proteins produced by mRNAs spliced into the X region of the human T-cell leukemia/lymphotropic virus type II. Virology 209:445-456.
13. Crandall, K. A. 1996. Multiple interspecies transmissions of human and simian T-cell leukemia/lymphoma virus type I sequences. Mol. Biol. Evol. 13:115-131.
14. Derse, D. 1987. Bovine leukemia virus transcription is controlled by a virus-encoded trans-acting factor and by cis-acting response elements. J. Virol. 61:2462-2471.
15. Falk, H., N. Mador, R. Udi, A. Panet, and A. Honigman. 1993. Two cis-acting signals control ribosomal frameshift between human T-cell leukemia virus type II gag and pro genes. J. Virol. 67:6273-6277.
16. Ferrer, J. F., N. Del Pino, E. Esteban, M. P. Sherman, S. Dube, D. K. Dube, M. A. Basombrio, E. Pimentel, A. Segovia, S. Quirulas, and J. Poiesz. 1993. High rate of infection with the human T-cell leukemia retrovirus type II in four Indian populations of Argentina. Virology 197:576-584.
17. Frohman, M. A., M. K. Dush, and G. R. Martin. 1988. Rapid production of full-length cDNAs from rare transcripts: amplification using a single genespecific oligonucleotide primer. Proc. Natl. Acad. Sci. USA 85:8998-9002.
18. Gessain, A., F. Barin, J. C. Vernant, O. Gout, L. Maurs, A. Calender, and G. de Thé. 1985. Antibodies to human T-lymphotropic virus type-I in patients with tropical spastic paraparesis. Lancet ii:407-410.
19. Gessain, A., E. Boeri, R. Yanagihara, R. C. Gallo, and G. Franchini. 1993. Complete nucleotide sequence of a highly divergent human T-cell leukemia (lymphotropic) virus-type I (HTLV-I) variant from Melanesia: genetic and phylogenetic relationship to HTLV-I strains from other geographical regions. J. Virol. 67:1015-1023.
20. Gessain, A., P. Mauclère, A. Froment, M. Biglione, J. Y. Le Hesran, F. Tekaia, J. Millan, and G. de Thé, 1995. Isolation and molecular characterization of a human T-cell lymphotropic virus type II (HTLV-II), subtype B, from a healthy Pygmy living in a remote area of Cameroon. An ancient origin for HTLV-II in Africa. Proc. Natl. Acad. Sci. USA 92:4041-4045.
21. Giri, A., P. Markham, L. Digilio, G. Hurteau, R. C. Gallo, and G. Franchini. 1994. Isolation of a novel simian T-cell lymphotropic virus from Pan paniscus that is distantly related to the human T-cell leukemia/lymphotropic virus types I and II. J. Virol. 68:8392-8395.
22. Goubau, P., J. Desmyter, and J. Ghesquiere. 1992. HTLV-II among pygmies. Nature 359:201. (Letter.)
23. Goubau, P., M. Van Brussel, A.-M. Vandamme, H.-F. Liu, and J. Desmyter. 1994. A primate T-lymphotropic virus. PTLV-L, different from human T-lymphotropic viruses types I and II, in a wild-caught baboon (Papio hamadryas). Proc. Natl. Acad. Sci. USA 91:2848-2852.
24. Hayakawa, T., Y. Misumi, M. Kobayashi, Y. Yamamoto, and Y. Fujisawa, 1992. Requirement of N- and C-terminal regions for enzymatic activity of human T-cell leukemia virus type I protease. Eur. J. Biochem. 206:919-925.
25. Ibrahim, F., G. De Thé, and A. Gessain. 1995. Isolation and characterization of a new simian T-cell leukemia virus type 1 from naturally infected Celebes macaques (Macacao tonkeana): complete nucleotide sequence and phylogenetic relationship with the Australo-Melanesian human T-cell leukemia virus type 1. J. Virol. 69:6980-6993.
26. Kim, J. H., P. A. Kaufman, S. M. Hanly, L. T. Rimsky, and W. C. Greene. 1991. Rex transregulation of human T-cell leukemia virus type II gene expression. J. Virol. 65:405-414.
27. Koralnik, I. J., A. Gessain, M. E. Klotman, A. Lo Monico, Z. N. Berneman, and G. Franchini. 1992. Protein isoforms encoded by the pX region of human T-cell leukemia/lymphotropic virus type I. Proc. Natl. Acad. Sci. USA 89:8813-8817.
28. Koralnik, I. J., E. Boeri, W. C. Saxinger, A. Lo Monico, J. Fullen, A. Gessain, H.-G. Guo, R. C. Gallo, P. Markham, V. Kalyanaraman, V. Hirsch, J. Allan, K. Murthy, P. Alford, J. P. Slattery, S. J. O'Brien, and G. Franchini. 1994. Phylogenetic associations of human and simian T-cell leukemia/lymphotropic virus type I strains: evidence for interspecies transmission. J. Virol. 68:2693-2707.
29. Lal, R. B., S. K. Brodine, J. E. Coligan, and C. R. Roberts. 1991. Differential antibody responsiveness to p19 gag results in serological discrimination between human T lymphotropic virus type I and type II. J. Med. Virol. 35:232-236.
30. Lipman, D. J., and W. R. Pearson. 1985. Rapid and sensitive protein similarity searches. Science 227:1435-1441.
31. Liu, H.-F., A.-M. Vandamme, M. Van Brussel, J. Desmyter, and P. Goubau. 1994. New retroviruses in human and simian T-lymphotropic viruses. Lancet 344:265-266. (Letter).
32. Liu, H.-F., P. Goubau, M. Van Brussel, K. Van Laethem, Y.-C. Chen, J. Desmyter, and A.-M. Vandamme. 1996. The three human T-lymphotropic virus type I subtypes arose from three geographically distinct simian reservoirs. J. Gen. Virol. 77:359-368.
33. Mason, P. J., and J. G. Williams. 1985. Hybridisation in the analysis of recombinant DNA, p. 113-137. In B. D. Hames and S. J. Higgins (ed.), Nucleic acid hybridisation: a practical approach. IRL Press, Oxford, United Kingdom.
34. Matzura, O., and A. Wennborg. 1996. RNAdraw: an integrated program for RNA secondary structure calculation and analysis under 32-bit Microsoft Windows. CABlOS 12(3):247-249.
35. Miyoshi, I., I. Kubonishi, S. Yoshimoto, T. Akagi, Y. Ohtsuki, Y. Shiraishi, T. Nagata, and Y. Hinuma. 1981. Type C virus particles in a cord T-cell line derived by co-cultivating normal human cord leukocytes and human leukaemic T-cells. Nature 294:770-771.
36. Murphy, E. L., J. W. Engstrom, K. Miller, R. A. Sacher, M. P. Busch, C. G. Hollingsworth, and REDS Investigators. 1993. HTLV-II associated myelopathy in 43-year-old woman. Lancet 341:757-758.
37. Nam, S. H., T. D. Copeland, M. Hatanaka, and S. Oroszlan. 1993. Characterization of ribosomal frameshifting for expression of pol gene products of human T-cell leukemia virus type I. J. Virol. 67:196-203.
38. Nam, S. H., M. Kidokoro, H. Shida, and M. Hatanaka. 1988. Processing of gag precursor polyprotein of human T-cell leukemia virus type I by virus-encoded protease. J. Virol. 62:3718-3728.
39. Osame, M., M. Matusmoto, K. Usuku, S. Izumo, N. Jjichi, H. Amitani, M. Tara, and A. Igata. 1987. Chronic progressive myelopathy associated with elevated antibodies to human T-lymphotropic virus type I and adult T-cell leukemialike cells. Ann. Neurol. 21:117-122.
40. Paine, E., J. Garcia, T. C. Philpott, G. Shaw, and L. Ratner. 1991. Limited sequence variation in human T-lymphotropic virus type I isolates from North American and African patients. Virology 182:111-123.
41. Pardi, D., W. M. Switzer, K. G. Hadlock, J. E. Kaplan, R. B. Lal, and T. M. Folks. 1993. Complete nucleotide sequence of an Amerindian human T-cell lymphotropic virus type II (HTLV-II) isolate: identification of a variant HTLV-II subtype b from Guaymi Indian. J. Virol. 67:4659-4664.
42. Pardi, D., B. Hjelle, T. M. Folks, and R. B. Lal. 1995. Genotypic characteristics of HTLV-II isolates from Amerindian and non-Indian populations. Virus Genes 10:27-35.
43. Poiesz, B. J., F. W. Ruscetti, A. F. Gazdar, P. A. Bunn, J. A. Minna, and R. C. Gallo. 1980. Detection and isolation of type C retrovirus particles from fresh and cultured lymphocytes of a patient with cutaneous T-cell lymphoma. Proc. Natl. Acad. Sci. USA 77:7415-7419.
44. Ponce, M. R., and J. L. Micol. 1992. PCR amplification of long DNA fragments. Nucleic Acids Res. 20:623.
45. Sagata, N., T. Yasunaga, Y. Ogawa, J. Tsuzuku-Kawamura, and Y. Ikawa. 1984. Bovine leukemia virus: unique structural features of its long terminal repeats and its evolutionary relationship to human T-cell leukemia virus. Proc. Natl. Acad. Sci. USA 81:4741-4745.
46. Salemi, M., A.-M. Vandamme, F. Guano, C. Gradozzi, E. Cattaneo, C. Casoli, and U. Bertazzoni. 1996. Complete nucleotidc sequence of the Italian human T-cell lymphotropic virus type II isolate Gu and phylogenetic identification of a possible origin of South European epidemics. J. Gen. Virol. 77:1193-1201.
47. Seiki, M., S. Hattori, Y. Hirayama, and M. Yoshida. 1983. Human adult T-cell leukemia virus: complete nucleotide sequence of the provirus genome integrated in leukemia cell DNA. Proc. Natl. Acad. Sci. USA 80:3618-3622.
48. Seiki, M., S. Hattori, and M. Yoshida. 1982. Human adult T-cell leukemia virus: molecular cloning of the provirus DNA and the unique terminal structure. Proc. Natl. Acad. Sci. USA 79:6899-6902.
49. Shapiro, M. B., and P. Senapathy. 1987. RNA splice junctions of different classes of eukaryotes: sequence statistics and functional implications in gene expression. Nucleic Acids Res. 15:7155-7174.
50. Shimotohno, K., M. Takano, T. Teruuchi, and M. Miwa. 1986. Requirement of multiple copies of a 21-nucleotide sequence in the U3 regions of human T-cell leukemia virus type I and type II long terminal repeats for trans-acting activation of transcription. Proc. Natl. Acad. Sci. USA 83:8112-8116.
51. Shimotohno, K., Y. Takahashi, N. Shimizu, T. Gojobori, D. W. Golde, E. S. Y. Chen, M. Miwa, and T. Sugimura. 1985. Complete nucleotide sequence of an infectious clone of human T-cell leukemia virus type II: an open reading frame for the protease gene. Proc. Natl. Acad. Sci. USA 82:3101-3105.
52. Shimotohno, K., D. W. Golde, M. Miwa, T. Sugimura, and I. S. Y. Chen. 1984. Nucleotide sequence analysis of the long terminal repeat of human T-cell leukemia virus type II. Proc. Natl. Acad. Sci. USA 81:1079-1083.
53. Song, K.-J., V. R. Nerurkar, N. Saitou, A. Lazo, J. R. Blakeslee, I. Miyoshi, and R. Yanagihara. 1994. Genetic analysis and molecular phylogeny of simian T-cell lymphotropic virus type I: evidence for independent virus evolution in Asia and Africa. Virology 199:56-66.
54. Suzuki, T., J.-I. Fujisawa, M. Toita, and M. Yoshida. 1993. The trans-activator Tax of human T-cell leukemia virus type 1 (HTLV-1) interacts with cAMP-responsive clement (CRE) binding and CRE modulator proteins that bind to the 21-base-pair enhancer of HTLV-1. Proc. Natl. Acad. Sci. USA 90:610-614.
55. Toyoshima, H., M. Itoch, J.-I. Inoue, M. Seiki, F. Takaku, and M. Yoshida. 1990. Secondary structure of the human T-cell leukemia virus type 1 rex-responsive element is essential for Rex regulation of RNA, processing, and transport of unspliced RNAs. J. Virol. 64:2825-2832.
56. Van Brussel, M., P. Goubau, R. Rousseau, J. Desmyter, and A.-M. Vandamme. 1996. The genomic structure of a new primate T-lymphotropic virus, STLV-PH969, differs from that of simian T-lymphotropic virus type I and human T-lymphotropic virus type I and II. J. Gen. Virol. 77:347-358.
57. Vandamme, A.-M., H.-F. Liu, P. Goubau, and J. Desmyter. 1994. Primate T-lymphotropic virus type I LTR sequence variation and its phylogenetic analysis: compatibility with an African origin of PTLV-I. Virology 202:212-223.
58. Vandamme, A.-M., H.-F. Liu, M. Van Brussel, W. De Meurichi, J. Desmyter, and P. Goubau. 1996. The presence of a divergent T-lymphotropic virus in a wild-caught pygmy chimpanzee (Pan paniscus) supports an African origin for the human T-lymphotropic/simian T-lymphotropic group of viruses. J. Gen. Virol. 77:1089-1099.
59. Vandamme, A.-M., K. Van Laethem, H.-F. Liu, M. Van Brussel, E. Delaporte, C. M. de Castro Costa, C. Fleischer, G. Taylor, U. Bertazzoni, J. Desmyter, and P. Goubau. 1997. Use of generic PCR assay detecting human T-lymphotropic virus (HTLV) types I, II and divergent simian strains in the evaluation of individuals with indeterminate HTLV serologies. J. Med. Virol. 52:1-7.
60. Watanabe, T., M. Seiki, S. H. Tsujimoto, I. Miyoshi, M. Hayama, and M. Yoshida. 1985. Sequence homology of the simian retrovirus genome with human T-cell leukemia virus type I. Virology 144:59-65.
61. Watanabe, T., M. Seiki, Y. Hirayama, and M. Yoshida. 1986. Human T-cell leukemia virus type I is a member of the African subtype of simian viruses (STLV). Virology 148:385-388.
62. Zehender, G., C. De Maddalena, M. Osio, B. Cavalli, C. Parravicini, M. Moroni, and M. Galli. 1995. High prevalence of human T cell lymphotropic virus type II infection in patients affected by human immunodeficiency virus type 1-associated predominantly sensory polyneuropathy. J. Infect. Dis. 172: 1595-1598.
63. Zhao, L.-J., and C.-Z. Giam. 1992. Human T-cell lymphotropic virus typo I (HTLV-I) transcriptional activator, Tax, enhances CREB binding of HTLV-1 21-base-pair repeats by protein-protein interaction. Proc. Natl. Acad. Sci. USA 89:7070-7074.