Primer tRNAS for reverse transcription

Journal of Virology

Volumn 71, Issue 11, 1997, Pages 8087-8095

  Mak, Johnson ^a   Kleiman, Lawrence ^b,c  

^a MACFARLANE BURNET INSTITUTE FOR MEDICAL RESEARCH AND PUBLIC HEALTH   (Australia)

^b MCGILL UNIVERSITY   (Canada)

^c MCGILL UNIVERSITY   (Canada)

Author keywords

[No Author keywords available]

Indexed keywords

PRIMER RNA; TRANSFER RNA;

DNA SYNTHESIS; LONG TERMINAL REPEAT; NONHUMAN; PRIORITY JOURNAL; RETROPOSON; RETROVIRUS; REVERSE TRANSCRIPTION; REVIEW; VIRUS TRANSCRIPTION;

EID: 0030812830     PISSN: 0022538X     EISSN: None     Source Type: Journal    
DOI: 10.1128/jvi.71.11.8087-8095.1997     Document Type: Review

References (92)

1. Trp primer is required for efficient initiation of reverse transcription. J. Virol. 66:2464-2472.
2. Aiyar, A., Z. Ge, and J. Leis. 1994. A specific orientation of RNA secondary structures is required for initiation of reverse transcription. J. Virol. 68:611-618.
3. 3-primed (-) strand DNA synthesis to an HIV-1 reverse transcriptase mutant with extended tRNAs. J. Biol. Chem. 271:9054-9061.
4. 3 interactions inhibiting primer utilization by retroviral reverse transcriptases. Proc. Natl. Acad. Sci. USA 93:10063-10068.
5. 3. Nucleic Acids Res. 19:751-757.
6. Barat, C., V. Lullien, O. Schatz, G. Keith, and J.-L. Darlix. 1989. HIV-1 reverse transcriptase specifically interacts with the anticodon domain of its cognate primer tRNA. EMBO J. 8:3279-3285.
7. Berkowitz, R., J. Fisher, and S. P. Goff. 1996. RNA packaging. Morphogenesis and maturation of retroviruses. Curr. Top. Microbiol. Immunol. 214: 177-218.
8. Boeke, J. D., C. A. Styles, and G. R. Fink. 1986. Saccharomyces cerevisiae SPT3 gene is required for transposition and transpositional recombination of chromosomal Ty elements. Mol. Cell. Biol. 6:3575-3581.
9. Cobrinik, D., L. Soskey, and J. Leis. 1988. A retroviral RNA secondary structure required for efficient initiation of reverse transcription. J. Virol. 62:3622-3630.
10. Colicelli, J., and S. P. Goff. 1987. Isolation of a recombinant murine leukemia virus utilizing a new primer tRNA. J. Virol. 57:37-45.
11. Crawford, S., and S. P. Goff. 1985. A deletion mutation in the 5′ part of the pol gene of Moloney murine leukemia virus blocks proteolytic processing of the gag and pol polyproteins. J. Virol. 53:899-907.
12. Darlix, J.-L., M. Lapadat-Tapolsky, H. de Rocquigny, and B. P. Roques. 1995. First glimpses at structure-functure relationships of the nucleocapsid protein of retroviruses. J. Mol. Biol. 254:523-537.
13. Das, A. T., and B. Berkhout. 1995. Efficient extension of a misaligned tRNA primer during replication of the HIV-1 retrovirus. Nucleic Acids Res. 23: 1314-1326.
14. 3. J. Virol. 69:3090-3097.
15. de Rocquigny, H., D. Ficheux, C. Gabus, B. Allain, M. C. Fournie-Zaluski, J.-L. Darlix, and B. P. Roques. 1993. Two short basic sequences surrounding the zinc finger of nucleocapsid protein NCp10 of Moloney murine leukemia virus are critical for RNA annealing activity. Nucleic Acids Res. 21:823-829.
16. de Rocquigny, H., C. Gabus, A. Vincent, M.-C. Fournie-Zaluski, B. Roques, and J.-L. Darlix. 1992. Viral RNA annealing activities of human immunodeficiency virus type 1 nucleocapsid protein require only peptide domains outside the zinc fingers. Proc. Natl. Acad. Sci. USA 89:6472-6476.
17. Faras, A. J., and N. A. Dibble. 1975. RNA-directed DNA synthesis by the DNA polymerase of Rous sarcoma virus: structural and functional identification of 4S primer RNA in uninfected cells. Proc. Natl. Acad. Sci. USA 72:859-863.
18. Flavell, A. J. 1992. Ty 1 copia group retrotransposons and the evolution of retroelements in the eukaryotes. Genetica 86:203-214.
19. Guo, J., L. E. Henderson, J. Bess, B. Kane, and J. G. Levin. 1997. Human immunodeficiency virus type 1 nucleocapsid protein promotes efficient strand transfer and specific viral DNA synthesis by inhibiting TAR-dependent self-priming from minus-strand strong-stop DNA. J. Virol. 71:5178-5188.
20. Pro. J. Biol. Chem. 254:10979-10985.
21. Harada, F., R. C. Sawyer, and J. E. Dahlberg. 1975. A primer RNA for initiation of in vitro Rous sarcoma virus DNA synthesis: nucleotide sequence and amino acid acceptor activity. J. Biol. Chem. 250:3487-3497.
22. Lys incorporation into human immunodeficiency virus type 1. J. Virol. 71:4378-4384.
23. 3 into human immunodeficiency virus type 1. J. Virol. 68:7676-7683.
24. 3 anticodon on the initiation of human immunodeficiency virus type 1 reverse transcription. J. Virol. 70:4700-4706.
25. 3 genomic placement and initiation of reverse transcription in HIV-1. Submitted for publication.
26. 3 on the viral genome exists in unextended and two-base extended forms within mature human immunodeficiency virus type 1. J. Virol. 71:726-728.
27. 3 (template/primer) complex. J. Mol. Biol. 247:236-250.
28. 3. EMBO J. 15:917-924.
29. 3 modulate primer/template loop-loop interaction in the initiation complex of HIV-1 reverse transcription. J. Biol. Chem. 268:25269-25272.
30. Jiang, M., J. Mak, A. Ladha, E. Cohen, M. Klein, B. Rovinski, and L. Kleiman. 1993. Identification of tRNAs incorporated into wild-type and mutant human immunodeficiency virus type 1. J. Virol. 67:3246-3253.
31. Met. J. Virol. 71:207-217.
32. Keeney, J. B., K. B. Chapman, V. Lauermann, D. F. Voytas, S. U. Åstrom, U. von Pawel-Rammingen, A. Byström, and J. D. Boeke. 1995. Multiple molecular determinants for retrotransposition in a primer tRNA. Mol. Cell. Biol. 15:217-226.
33. 2G in position 7. Nucleic Acids Res. 18:703-710.
34. Khan, R., and D. P. Giedroc. 1992. Recombinant human immunodeficiency virus type 1 nucleocapsid (NCp7) protein unwinds tRNA. J. Biol. Chem. 267:6689-6695.
35. Kikuchi, Y., Y. Ando, and T. Shiba. 1986. Unusual priming mechanism of RNA-directed DNA synthesis in copia retrovirus-like particles of Drosophila. Nature 323:824-826.
36. Kim, A., C. Terzian, P. Santamaria, A. Pelisson, N. Prudhomme, and A. Bucheton. 1994. Retroviruses in invertebrates: the gypsy retrotransposon is apparently an infectious retrovirus of Drosophila meloanogaster. Proc. Natl. Acad. Sci. USA 91:1285-1284.
37. 2 as a primer in an in vitro primer-utilization assay. Proc. Natl. Acad. Sci. USA 89:9652-9656.
38. Lanchy, J., C. Ehresmann, S. F. J. LeGrice, B. Ehresmann, and R. Marquet. 1996. Binding and kinetic properties of HIV-1 reverse transcriptase markedly differ during initiation and elongation of reverse transcription. EMBO J. 15:7178-7187.
39. Lapadat-Tapolsky, M., C. Pernelle, C. Borie, and J.-L. Darlix. 1995. Analysis of the nucleic acid annealing activities of nucleocapsid protein from HIV-1. Nucleic Acids Res. 23:2434-2441.
40. Lauermann, V., and J. D. Boeke. 1944. The primer tRNA sequence is not inherited during Ty1 retrotransposition. Proc. Natl. Acad. Sci. USA 91:9847-9851.
41. 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, vol. 1. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y.
42. Levin, J. G., S. C. Hu, A. Rein, L. I. Messer, and B. I. Gerwin. 1984. Murine leukemia virus mutant with a frameshift in the reverse transcriptase coding region: implications for pol gene structure. J. Virol. 51:470-478.
43. Pro during murine leukemia virus assembly. J. Virol. 38:403-408.
44. Levin, J. G., and J. G. Seidman. 1979. Selective packaging of host tRNA's by murine leukemia virus particles does not require genomic RNA. J. Virol. 29:328-335.
45. Li, X., J. Mak, E. J. Arts, Z. Gu, L. Kleiman, M. A. Wainberg, and M. A. Parniak. 1994. Effects of alternations of primer-binding site sequences on human immunodeficiency virus type 1 replication. J. Virol. 68:6198-6206.
46. 3 in vitro: studies of viral RNA molecules mutated in regions that flank the primer binding site. J. Virology. 70:4996-5004.
47. Liang, C., X. Li, L. Rong, P. Inouye, Y. Quan, L. Kleiman, and M. A. Wainberg. 1997. The importance of the A-rich loop in human immunodeficiency virus type 1 reverse transcription and infectivity. J. Virol. 71:5750-5757.
48. 3: role of reverse transcription. Trends Biochem. Sci. 19:114-118.
49. Lund, A. H., M. Duch, J. Lovmand, P. Jørgensen, and F. S. Pedersen. 1997. Complementation of a primer binding site-impaired murine leukemia virus-derived retroviral vector by a genetically engineered tRNA-like primer. J. Virol. 71:1191-1195.
50. Lund, A. H., M. Duch, J. Lovmand, P. Jørgensen, and F. S. Pedersen. 1993. Mutated primer binding sites interacting with different tRNAs allow efficient murine leukemia virus replication. J. Virol. 67:7125-7130.
51. Maizels, N., and A. M. Weiner. 1993. The genomic tag hypothesis: modern viruses as molecular fossils of ancient strategies for genomic replication, p. 577-602. In R. F. Gesteland and J. F. Atkins (ed.), The RNA world. Cold Spring Harbor Laboratory Press, Cold Spring Harbor. N.Y.
52. Lys into human immunodeficiency virus type 1 particles. J. Virol. 68:2065-2072.
53. gag-pol incorporation into HIV-1. J. Mol. Biol. 265:419-431.
54. Marquet, R., C. Isel, C. Ehresmann, and B. Ehresmann. 1995. tRNA as primer of reverse transcriptases. Biochimie 77:113-124.
55. 3, in vitro, is essentially not specific. J. Biol. Chem. 270:1650-1656.
56. 3 to reverse transcriptase from human immunodeficiency virus type 1. EMBO J. 14:2679-2687.
57. Murphy, J. E., and S. P. Goff. 1989. Construction and analysis of deletion mutations in the U5 region of Moloney murine leukemia virus: effects on RNA packaging and reverse transcription. J. Virol. 63:319-327.
58. Panet, A., and H. Berliner. 1978. Binding of tRNA to reverse transcriptase of RNA tumor viruses. J. Virol. 26:214-220.
59. gag and is incorporated into viruslike particles. J. Virol. 66:6304-6313.
60. Pelisson, A., S. U. Song, N. Prudhomme, P. A. Smith, A. Bucheton, and V. G. Corces. 1994. Gypsy transposition correlates with the production of a retroviral envelope-like protein under the tissue-specific control of the Drosophila flamenco gene. EMBO J. 13:4401-4411.
61. Peters, G., F. Harada, J. E. Dahlberg, A. Panet, W. A. Haseltine, and D. Baltimore. 1977. Low-molecular-weight RNAs of Moloney murine leukemia virus: identification of the primer for RNA-directed DNA synthesis. J. Virol. 21:1031-1041.
62. Peters, G., and C. Glover. 1980. tRNA's and priming of RNA-directed DNA synthesis in mouse mammary tumor virus. J. Virol. 35:31-40.
63. Peters, G. G., and J. Hu. 1980. Reverse transcriptase as the major determinant for selective packaging of tRNA's into avian sarcoma virus particles. J. Virol. 36:692-700.
64. Prats, A. C., L. Sarih, C. Gabus, S. Litvak, G. Keith, and J.-L. Darlix. 1988. Small finger protein of avian and murine retroviruses has nucleic acid annealing activity and positions the replication primer tRNA onto genomic RNA. EMBO J. 7:1777-1783.
65. Raba, M., K. Limburg, M. Burghagen, J. Katz, M. Simsek, J. Heckman, U. Rajbhandary, and H. Gross. 1979. Nucleotide sequence of three isoaccepting lysine tRNAs from rabbit liver and SV40-transformed mouse fibroblasts. Eur. J. Biochem. 97:305-318.
66. Rethwilm, A. 1995. Regulation of foamy virus gene expression. Curr. Top. Microbiol. Immunol. 193:1-24.
67. Lys. Eur. J. Biochem. 184:367-374.
68. Sandmeyer, S. B., and T. M. Menees. 1996. Morphogenesis at the retrotransposon-retrovirus interface: gypsy and copia families in yeast and Drosophila, p. 261-296. In H. G. Krausslich (ed.), Morphogenesis and maturation of retroviruses, vol. 214. Springer-Verlag, Berlin, Germany.
69. Lys as evidenced by footprinting studies and inhibition with synthetic oligoribonucleotides. J. Mol. Biol. 226:1-6.
70. Sawyer, R. C., and J. E. Dahlberg. 1973. Small RNAs of Rous sarcoma virus: characterization by two-dimensional polyacrylamide gel electrophoresis and fingerprint analysis. J. Virol. 12:1226-1237.
71. Sawyer, R. C., and H. Hanafusa. 1979. Comparison of the small RNAs of polymerase-deficient and polymerase-positive Rous sarcoma virus and another species of avian retrovirus. J. Virol. 29:863-871.
72. gag-pol from human immunodeficiency virus type 1 Into virus-like particles. J. Virol. 67:2266-2275.
73. Springer, M. S., and R. J. Britten. 1993. Phylogenetic relationships of reverse transcriptase and RNase H sequences and aspects of genome structure in the gypsy group of retrotransposons. Mol. Biol. Evol. 10:1370-1379.
74. Srinivasakumar, N., M.-L. Hammarskjöld, and D. Rekosh. 1995. Characterization of deletion mutations in the capsid region of human immunodeficiency virus type 1 that affect particle formation and Gag-Pol precursor incorporation. J. Virol. 69:6106-6114.
75. Stapulionis, R., and M. P. Deutscher. 1995. A channel tRNA cycle during mammalian protein synthesis. Proc. Natl. Acad. Sci. USA 92:7158-7161.
76. Stewart, L., G. Schatz, and V. M. Vogt. 1990. Properties of avian retrovirus particles defective in viral protease. J. Virol. 64:5076-5092.
77. Taylor, J. M. 1977. An analysis of the role of tRNA species as primers for transcription into DNA of RNA tumor virus genomes. Biochim. Biophys. Acta 47:57-71.
78. Telesnitsky, A., and S. P. Goff. 1993. Strong-stop strand transfer during reverse transcriptase, p. 49-84. In A. M. Skalka and S. P. Goff (ed.), Reverse transcriptase, vol. 1. Cold Spring Harbor Laboratory Press, New York, N.Y.
79. Voytas, D. F., and J. D. Boeke. 1993. Yeast retrotransposons and tRNAs. Trends Genet. 9:421-426.
80. His. J. Virol. 70:966-975.
81. Wakefield, J. K., H. Rhim, and C. D. Morrow. 1994. Minimal sequence requirements of a functional human immunodeficiency virus type 1 primer binding site. J. Virol. 68:1605-1614.
82. 3. J. Virol. 69:6021-6029.
83. Waters, L. C. 1978. Lysine tRNA is the predominant tRNA in murine mammary tumor virus. Biochem. Biophys. Res. Commun. 81:822-827.
84. Waters, L. C., and B. C. Mullin. 1977. Transfer RNA in RNA tumor viruses. Prog. Nucleic Acid Res. Mol. Biol. 20:131-160.
85. Waters, L. C., B. C. Mullin, T. Ho, and W. K. Yang. 1975. Ability of tryptophan tRNA to hybridize with 35S RNA of avian myeloblastosis virus and prime reverse transcription in vitro. Proc. Natl. Acad. Sci. USA 72:2155-2159.
86. Whitcomb, J. M., B. A. Ortiz-Conde, and S. H. Hughes. 1995. Replication of avian leukosis viruses with mutations at the primer binding site: use of alternative tRNAs as primers. J. Virol. 69:6228-6238.
87. Wilhelm, M., T. Heyman, S. Friant, and F. X. Wilhelm. 1997. Heterogeneous terminal structure of Ty1 and Ty3 reverse transcripts. Nucleic Acids Res. 25:2161-2166.
88. Wilhelm, M., F. X. Wilhelm, G. Keith, B. Agoutin, and T. Heyman. 1994. Yeast Ty1 retrotransposon: the minus-strand primer binding site and a cis-acting domain of the Ty1 RNA are both important for packaging of primer tRNA inside virus-like particles. Nucleic Acids Res. 22:4560-4565.
89. 3 complexes. J. Biol. Chem. 268:13617-13624.
90. Xiong, Y., and T. H. Eickbush. 1990. Origin and evolution of retroelements based upon their reverse transcriptase sequences. EMBO J. 9:3353-3362.
91. Yu, S. F., D. N. Baldwin, S. R. Gwynn, S. Yendapalli, and M. L. Linial. 1996. Human foamy virus replication: a pathway distinct from that of retroviruses and hepadnaviruses. Science 271:1579-1582.
92. Yu, S. F., K. Edelmann, R. K. Strong, A. Moebes, A. Rethwilm, and M. L. Linial. 1996. The carboxyl terminus of the human foamy virus Gag protein contains separable nucleic acid binding and nuclear transport domains. J. Virol. 70:8255-8262.