Complete nucleotide sequence of simian endogenous type D retrovirus with intact genome organization: Evidence for ancestry to simian retrovirus and baboon endogenous virus

Journal of Virology

Volumn 71, Issue 5, 1997, Pages 3666-3676

  Van Der Kuyl, Antoinette C ^a   Mang, Rui ^a   Dekker, John T ^a   Goudsmit, Jaap ^a  

^a ACADEMIC MEDICAL CENTER   (Netherlands)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; GENE STRUCTURE; LONG TERMINAL REPEAT; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; PRIORITY JOURNAL; RETROVIRUS; VIRUS GENE; VIRUS GENOME;

EID: 0031001920     PISSN: 0022538X     EISSN: None     Source Type: Journal    
DOI: 10.1128/jvi.71.5.3666-3676.1997     Document Type: Article

References (48)

1. Asikainen, K., M. Vesanen, T. Kuittinen, and A. Vaheri. 1993. Identification of human type D retrovirus as a contaminant in a neuroblastoma cell line. Arch. Virol. 129:357-361.
2. Barker, C. S., J. W. Wills, J. A. Bradac, and E. Hunter. 1985. Molecular cloning of the Mason-Pfizer monkey virus genome: characterization and cloning of subgenomic fragments. Virology 142:223-240.
3. Benveniste, R. E., M. M. Lieber, D. M. Livingston, C. J. Sherr, and G. J. Todaro. 1974. Infectious C-type virus isolated from a baboon placenta. Nature 248:17-20.
4. Benveniste, R. E., and G. J. Todaro. 1977. Evolution of primate oncornaviruses: an endogenous virus from langurs (Presbytis spp.) with related virogene sequences in other Old World monkeys. Proc. Natl. Acad. Sci. USA 74:4557-4571.
5. Bohannon, R. C., L. A. Donehower, and R. J. Ford. 1991. Isolation of a type D retrovirus from B-cell lymphomas of a patient with AIDS. J. Virol. 65: 5663-5672.
6. Boller, K., H. König, M. Sauter, N. Mueller-Lantzsch, R. Löwer, J. Löwer, and R. Kurth. 1993. Evidence that HERV-K is the endogenous retrovirus sequence that codes for the human teratocarcinoma-derived retrovirus HTDV. Virology 196:349-353.
7. Boom, R., C. J. A. Sol, M. M. M. Salimans, C. L. Jansen, P. M. E. Wertheimvan Dillen, and J. van der Noordaa. 1990. Rapid and simple method for purification of nucleic acids. J. Clin. Microbiol. 28:495-503.
8. Bray, M., S. Prasad, J. W. Dubay, E. Hunter, K.-T. Jeang, D. Rekosh, and M.-L. Hammarskjöld. 1994. A small element from the Mason-Pfizer monkey virus genome makes human immunodeficiency virus type 1 expression and replication Rev-independent. Proc. Natl. Acad. Sci. USA 91:1256-1260.
9. Coffin, J. M. 1992. Structure and classification of retroviruses, p. 19-49. In J. A. Levy (ed.), The Retroviridae, vol. I. Plenum Press, New York, N. Y.
10. Domingo, E., and J. J. Holland. 1988. High error rates, population equilibrium and evolution of RNA replication systems, p. 3-36. In E. Domingo, J. J. Holland, and P. Ahlquist (ed.), RNA genetics. CRC Press, Boca Raton, Fla.
11. Elder, J. H., D. L. Lerner, C. S. Hasselkus-Light, D. J. Fontenot, E. Hunter, P. A. Luciw, R. C. Montelaro, and T. R. Phillips. 1992. Distinct subsets of retroviruses encode dUTPase. J. Virol. 66:1791-1794.
12. Fine, D. L., G. C. Clarke, and L. O. Arthur. 1979. Characterization of infection and replication of Mason-Pfizer monkey virus in human cell cultures. J. Gen. Virol. 44:457-469.
13. Gardner, M. B., M. Endres, and P. Barry. 1994. The simian retroviruses SIV and SRV, p. 133-276. In J. A. Levy (ed.), The Retroviridae, part 3. Plenum Press, New York, N.Y.
14. Grant, R. F., S. K. Windsor, C. K. Malinak, C. R. Bartz, A. Sabo, R. E. Benveniste, and C.-C. Tsai. 1995. Characterization of infectious type D retrovirus from baboons. Virology 207:292-296.
15. Harrison, G. P., E. Hunter, and A. M. L. Lever. 1995. Secondary structure model of the Mason-Pfizer monkey virus 5′ leader sequence: identification of a structural motif common to a variety of retroviruscs. J. Virol. 69:2175-2186.
16. Heberling, R. L., S. T. Barker, S. S. Kalter, G. C. Smith, and R. J. Helmke. 1977. Oncornavirus: isolation from a squirrel monkey (Saimiri sciureus) lung culture. Science 195:289-292.
17. Higgins, D. G., and P. M. Sharp. 1988. CLUSTAL: a package for performing multiple sequence alignments on a microcomputer. Gene 73:237-244.
18. Ilyinskii, P., M. Daniel, N. Lerche, and R. Desrosiers. 1991. Antibodies to type D retrovirus in talapoin monkeys. J. Gen. Virol. 72:453-456.
19. Jacks, T., and H. E. Varmus. 1985. Expression of the Rous sarcoma virus pol gene by ribosomal frameshifting. Science 23:1237-1242.
20. Kato, S., K. Matsuo, N. Nishimura, N. Takahashi, and T. Takano. 1987. The entire nucleotide sequence of baboon endogenous virus DNA: a chimeric genome structure of murine type C and simian type D retroviruses. Jpn. J. Genet. 62:127-137.
21. Kimura, M. A. 1980. A simple method for estimating evolutionary rate of base substitution through comparative studies of nucleotide sequences. J. Mol. Evol. 16:111-120.
22. Krause, H., V. Wunderlich, and W. Uckert. 1989. Molecular cloning of a type D retrovirus from human cells (PMFV) and its homology to simian acquired immunodeficiency type D retroviruses. Virology 173:214-222.
23. Kumar, S., K. Tamura, and M. Nei. 1993. MEGA: Molecular Evolutionary Genetics Analyses, version 1.0. Pennsylvania State University, University Park, Pa.
24. Leis, J., A. Aiyar, and D. Cobrinik. 1993. Regulation of initiation of reverse transcription of retroviruses, p. 33-47. In A. M. Skalka and S. P. Goff (ed.), Reverse transcriptase. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y.
25. Lerner, D. L., P. C. Wagaman, T. H. Phillips, O. Prospero-Garcia, S. J. Henriksen, H. S. Fox, F. E. Bloom, and J. H. Elder. 1995. Increased mutation frequency of feline immunodeficiency virus lacking functional deoxyuridine-triphosphatase. Proc. Natl. Acad. Sci. USA 92:7480-7484.
26. Lowenstine, L. J., N. C. Pedersen, J. Higgins, K. C. Pallis, A. Uyeda, P. Marx, N. W. Lerche, R. J. Munn, and M. B. Gardner. 1986. Seroepidemiologic survey of captive Old-World primates for antibodies to human and simian retroviruses, and isolation of a lentivirus from sooty mangabeys (Cercocebus atys). Int. J. Cancer 38:563-574.
27. Martin, R. D. 1993. Primate origins: plugging the gaps. Nature 363:223-234.
28. Marx, P. A., D. H. Maul, K. G. Osborn, N. W. Lerche, P. Moody, L. J. Lowenstine, R. V. Henrickson, L. O. Arthur, R. V. Gilden, M. Gravell, W. T. London, J. L. Sever, J. A. Levy, R. J. Munn, and M. J. Gardner. 1984. Simian AIDS: isolation of a type D retrovirus and transmission of the disease. Science 223:1083-1086.
29. McGeoch, D. J. 1990. Protein sequence comparisons show that the 'pseudoproteases' encoded by poxviruses and certain retroviruses belong to the deoxyuridine triphosphatase family. Nucleic Acids Res. 18:4105-4110.
30. Oda, T., S. Ikeda, S. Watanabe, M. Hatsushika, K. Akiyama, and F. Mitsunobo. 1988. Molecular cloning, complete nucleotide sequence, and gene structure of the provirus genome of a retrovirus produced in a human lymphoblastoid cell line. Virology 167:468-476.
31. Ouspenskaia, M. V., D. A. Johnston, W. M. Roberts, Z. Estrov, and T. F. Zipf. 1995. Accurate quantification of residual B-precursor acute lymphoblastic leukemia by limiting dilution and a PCR based detection system: a description of the method and the principles involved. Leukemia 9:321-328.
32. Poch, O., I. Sauvaget, M. Delarue, and N. Tordo. 1989. Identification of four conserved motifs among the RNA-dependent RNA polymerase encoding elements. EMBO J. 8:3867-3874.
33. Power, M. D., P. A. Marx, M. L. Bryant, M. B. Gardner, P. J. Barr, and P. A. Luciw. 1986. Nucleotide sequence of SRV-1, a type D simian acquired immune deficiency syndrome retrovirus. Science 231:1567-1572.
34. Rabin, H., C. V. Benton, M. A. Tainsky, N. R. Rice, and R. V. Gilden. 1979. Isolation and characterization of an endogenous type C virus of rhesus monkeys. Science 204:841-842.
35. Rizvi, T. A., K. A. Lew, E. C. Murphy, Jr., and R. D. Schmidt. 1996. Role of Mason-Pfizer monkey virus (MPMV) constitutive transport element (CTE) in the propagation of MPMV vectors by genetic complementation using homologous/heterologous env genes. Virology 224:517-532.
36. Sherwin, S. A., and G. J. Todaro. 1979. A new endogenous primate type C virus isolated from the Old World monkey Colobus polykomos. Proc. Natl. Acad. Sci. USA 76:5041-5045.
37. Sommerfelt, M. A., and R. A. Weiss. 1990. Receptor interference groups of 20 retroviruses plating on human cells. Virology 176:58-69.
38. Sommerfelt, M. A., B. P. Williams, A. McKnight, P. N. Goodfellow, and R. A. Weiss. 1990. Localization of the receptor gene for type D simian retroviruses on human chromosome 19. J. Virol. 64:6214-6220.
39. Sonigo, P., C. Barker, E. Hunter, and S. Wain-Hobson. 1986. Nucleotide sequence of Mason-Pfizer monkey virus: an immunosuppressive D-type retrovirus. Cell 45:375-385.
40. Stromberg, K., R. E. Benveniste, L. O. Arthur, H. Rabin, W. E. Giddens, Jr., H. D. Ochs, W. R. Morton, and C-C. Tsai. 1984. Characterization of exogenous type D retrovirus from a fibroma of a macaque with simian AIDS and fibromatosis. Science 224:289-292.
41. Thayer, R. M., M. D. Power, M. L. Bryant, M. B. Gardner, P. J. Barr, and P. A. Luciw. 1987. Sequence relationships of type D retroviruses which cause simian acquired immunodeficiency syndrome. Virology 157:317-329.
42. Todaro, G. J., R. E. Benveniste, S. A. Sherwin, and C. J. Sherr. 1978. MAC-1, a new genetically transmitted type C virus of primates: "low frequency" activation from stumptail monkey cell cultures. Cell 13:775-782.
43. Todaro, G. J., M. M. Lieber, R. E. Benveniste, C. J. Sherr, C. J. Gibbs, and D. C. Gajdusek. 1975. Infectious primate type C viruses: three isolates belonging to a new subgroup from the brains of normal gibbons. Virology 67:335-343.
44. Todaro, G. J., C. J. Sherr, A. Sen, N. King, M. D. Daniel, and B. Fleckenstein. 1978. Endogenous New World primate type C viruses isolated from owl monkey (Aotus trivirgates) kidney cell line. Proc. Natl. Acad. Sci. USA 75:1004-1008.
45. van der Kuyl, A. C., J. T. Dekker, and J. Goudsmit. 1995. Full-length proviruses of baboon endogenous virus (BaEV) and dispersed BaEV reverse transcriptase retroelements in the genome of baboon species. J. Virol. 69: 5917-5924.
46. van der Kuyl, A. C., J. T. Dekker, and J. Goudsmit. 1995. Distribution of baboon endogenous virus among species of African monkeys suggests multiple ancient cross-species transmissions in shared habitats. J. Virol. 69:7877-7887.
47. van der Kuyl, A. C., C. L. Kuiken, J. T. Dekker, and J. Goudsmit. 1995. Phylogeny of African monkeys based upon the mitochondrial 12S rRNA gene. J. Mol. Evol. 40:173-180.
48. van der Kuyl, A. C., J. T. Dekker, and J. Goudsmit. 1996. Baboon endogenous virus evolution and ecology. Trends Microbiol. 4:455-459.