Factors governing the activity in vivo of ribozymes transcribed by RNA polymerase III

Journal of Virology

Volumn 73, Issue 3, 1999, Pages 1868-1877

  Koseki, Shiori ^a,d   Tanabe, Tsuyoshi ^b   Tani, Kenzaburo ^b   Asano, Shigetaka ^b   Shioda, Tatsuo ^b   Nagai, Yoshiyuki ^b   Shimada, Takashi ^c   Ohkawa, Jun ^a,d   Taira, Kazunari ^a,d  

^a NATIONAL INSTITUTE OF ADVANCED INDUSTRIAL SCIENCE AND TECHNOLOGY AIST   (Japan)

^b UNIVERSITY OF TOKYO   (Japan)

^c NIPPON MEDICAL SCHOOL   (Japan)

^d UNIVERSITY OF TSUKUBA   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

DNA DIRECTED RNA POLYMERASE III; RIBOZYME; VALINE TRANSFER RNA; VIRUS RNA;

ARTICLE; ENZYME ACTIVITY; ENZYME LOCALIZATION; HELA CELL; HUMAN; HUMAN CELL; HUMAN IMMUNODEFICIENCY VIRUS 1; NONHUMAN; PRIORITY JOURNAL; RNA STRUCTURE; T LYMPHOCYTE; VIRUS TRANSCRIPTION;

EID: 0032981467     PISSN: 0022538X     EISSN: None     Source Type: Journal    
DOI: 10.1128/jvi.73.3.1868-1877.1999     Document Type: Article

References (60)

1. Adachi, A., H. E. Gendelman, S. Koenig, T. Folks, R. Willey, A. Rabson, and M. A. Martin. 1986. Production of acquired immunodeficiency syndrome-associated retrovirus in human and nonhuman cells transfected with an infectious molecular clone. J. Virol. 59:284-291.
2. Mct gene. Nucleic Acids Res. 12: 1101-1115.
3. Va1 gene family: organization, nucleotide sequences and homologous transcription of three single-copy genes. Gene 44:287-297.
4. Arts, G.-J., M. Fornerod, and I. W. Mattaj. 1998. Identification of a nuclear export receptor for tRNA. Curr. Biol. 6:305-314.
5. Bertrand, E., R. Pictet, and T. Grange. 1994. Can hammerhead ribozymes be efficient tools for inactivating gene function? Nucleic Acids Res. 22:293-300.
6. Bertrand, E., and J. J. Rossi. 1996. Anti-HIV therapeutic hammerhead ribozymes: targeting strategies and optimization of intracellular function. Nucleic Acids Mol. Biol. 10:301-313.
7. Bertrand, E., D. Castanotto, C. Zhou, C. Carbonnelle, G. P. Lee, S. Chatterjee, T. Grange, R. Pictet, D. Kohn, D. Engelke, and J. J. Rossi. 1997. The expression cassette determines the functional activity of ribozymes in mammalian cells by controlling their intracellular localization. RNA 3:75-88.
8. Boelens, W., I. Palacios, and I. W. Mattaj. 1995. Nuclear retention of RNA as a mechanism for localization. RNA 1:273-283.
9. Cotten, M., and M. Birnstiel. 1989. Ribozyme mediated destruction of RNA in vivo. EMBO J. 8:3861-3866.
10. Dahm, S. C., and O. C. Uhlenbeck. 1991. Role of divalent metal ions in the hammerhead RNA cleavage reaction. Biochemistry 30:9464-9469.
11. Dahm, S. C., W. B. Derrick, and O. C. Uhlenbeck. 1993. Evidence for the role of solvated metal hydroxide in the hammerhead cleavage mechanism. Biochemistry 32:13040-13045.
12. Dropulic, B., N. Monika, and P. M. Pitha. 1996. A conditionally replicating HIV-1 vector interferes with wild-type HIV-1 replication and spread. Proc. Natl. Acad. Sci. USA 93:11103-11108.
13. Eckstein, F., and D. M. J. Lilley (ed.). 1996. Nucleic acids and molecular biology, vol. 10. Catalytic RNA. Springer-Verlag, Berlin, Germany.
14. Erickson, R. P., and J. Izant (ed.). 1992. Gene regulation: biology of antisense RNA and DNA. Raven Press, New York, N.Y.
15. Ferbeyre, G., J. Bratty, H. Chen, and R. Cedergren. 1996. Cell cycle arrest trans-hammerhead ribozyme action in yeast. J. Biol. Chem. 271:19318-19323
16. Fujita, S., T. Koguma, J. Ohkawa, K. Mori, T. Kohda, H. Kise, S. Nishikawa, M. K. Iwakura, and K. Taira. 1997. Discrimination of a single base change in a ribozyme using the gene for dihydrofolate reductase as a selective marker in Escherichia coli. Proc. Natl. Acad. Sci. USA 94:391-396.
17. Gebhard, J. R., C. M. Perry, S. Mahadeviah, and J. L. Witton. 1997. Use of a nonviral vector to express a chimeric tRNA-ribozyme against lymphocytic choriomeningitis virus: cytoplasmic accumulation of a catalytically competent transcript but minimal antiviral effect. Antisense Nucleic Acid Drug Dev. 7:3-11.
18. Good, P. D., A. J. Krikos, S. X. L. Li, N. S. Lee, L. Giver, A. Ellington, J. A. Zaia, J. J. Rossi, and D. R. Engelke. 1997. Expression of small, therapeutic RNAs in human cell nuclei. Gene Ther. 4:45-54.
19. Guerrier-Takada, C., K. Gardiner, T. Marsh, N. Pace, and S. Altman. 1983. The RNA moiety of ribonuclease P is the catalytic subunit of the enzyme. Cell 35:849-857.
20. Hamblet, N. S., and F. J. Castora. 1995. Mitochondrial DNA deletion analysis: a comparison of PCR quantitative methods. Biochem. Biophys. Res. Commun. 207:839-847.
21. Hasseloff, J., and W. L. Gerlach. 1988. Simple RNA enzymes with new and highly specific endoribonuclease activities. Nature 334:585-591.
22. Huang, Y., and G. G. Carmichael. 1996. Role of polyadenylation in nucleocytoplasmic transport of mRNA. Mol. Cell. Biol. 16:1534-1542.
23. Ilves, H., C. Barske, U. Junker, E. Bohnlein, and G. Veres. 1996. Retroviral vectors designed for targeted expression of RNA polymerase III-driven transcripts: a comparative study. Gene 171:203-208.
24. Inokuchi, Y., N. Yuyama, A. Hirashima, S. Nishikawa, J. Ohkawa, and K. Taira. 1994. A hammerhead ribozyme inhibits the proliferation of an RNA coliphage SP in E. coli. J. Biol. Chem. 269:11361-11366.
25. Jennings, P. A., and P. L. Molloy. 1987. Inhibition of SV40 replicon function by engineered antisense RNA transcribed by RNA polymerase III. EMBO J. 6:3043-3047.
26. Kawasaki, H., J. Ohkawa, N. Tanishige, K. Yoshinari, T. Murata, K. K. Yokoyama, and K. Taira. 1996. Selection of the best target site for ribozymemediated cleavage within a fusion gene for adenovirus E1A-associated 300 kDa protein (p300) and luciferase. Nucleic Acids Res. 24:3010-3016.
27. Kawasaki, H., R Ecker, T.-P. Yao, K. Taira, R. Chiu, D. M. Livingston, and K. K. Yokoyama. 1998. Distinct roles of the co-activators p300 and CBP in retinoic-add-induced F9-cell differentiation. Nature 393:284-289.
28. Kruger, K., P. J. Grabowski, A. J. Zaug, J. Sands, D. E. Gottschling, and T. R. Cech. 1982. Self-splicing RNA: autoexcision and autocyclization of the ribosomal RNA intervening sequence of Tetrahymena. Cell 31:147-157.
29. Va1 -driven short ribozymes. Nat. Biotechnol. 16:961-965.
30. Kuwabara, T., M. Warashina, T. Tanabe, K. Tani, S. Asano, and K. Taira. 1998. A novel allosterically tram-activated ribozyme, the maxizyme, with exceptional specificity in vitro and in vivo. Mol. Cell 2:617-627.
31. Lott, W. B., B. W. Pontius, and P. H. von Hippel. 1998. A two-metal ion mechanism operates in the hammerhead ribozyme-mediatcd cleavage of an RNA substrate. Proc. Natl. Acad. Sci. USA 95:542-547.
32. Murray, J. A. H. (ed.). 1992. Antisense RNA and DNA. Wiley-Liss. Inc.. New York, N.Y.
33. Ohkawa, J., N. Yuyama, Y. Takebe, S. Nishikawa, and K. Taira. 1993. Importance of independence in rihozyme reactions: kinetic behavior of trimmed and of simply connected multiple ribozymes with potential activity against human immunodeficiency virus. Proc. Natl. Acad. Sci. USA 90: 11302-11306.
34. Ohkawa, J., N. Yuyama, S. Koseki, Y. Takebe, M. Homman, G. Sczakiel, and K. Taira. 1998. The ability of tRNA-embedded ribozymes to prevent replication of HIV-1 in cell culture. Gene Ther. Mol. Biol. 2:69-82.
35. Ozawa, T., M. Tanaka, S. Ikebe, K. Ohno, T. Kondo, and Y. Mizuno. 1990. Quantitative determination of deleted mitochondrial DNA relative to normal DNA in parkinsonian striatum by a kinetic PCR analysis. Biochem. Biophys. Res. Commun. 172:483-489.
36. Perriman, R., G. Bruening, E. S. Dennis, and W. J. Peacock. 1995. Effective ribozyme delivery in plant cells. Proc. Natl. Acad. Sci. USA 92:6175-6179.
37. Pontius, B. W., W. B. Lott, and P. H. von Hippel. 1997. Observations on catalysis by hammerhead ribozymes are consistent with a two-divalent-metal-ion mechanism. Proc. Natl. Acad. Sci. USA 94:2290-2294.
38. Prislei, S., S. B. C. Buonomo, A. Michienzi, and I. Bozzoni. 1997. Use of adenoviral VA1 small RNA as a carrier for cytoplasmic delivery of ribozymes. RNA 3:677-687.
39. Rossi, J. J., and N. Sarver. 1990. RNA enzymes (ribozymes) as antiviral therapeutic agents. Trends Biotechnol. 8:179-183.
40. Rossi, J. J. 1995. Controlled, targeted, intracellular expression of ribozymes: progress and problems. Trends Biotechnol. 13:301-306.
41. Sarver, N., E. M. Cantin, P. S. Chang, J. A. Zaida, P. A. Ladne, D. A. Stepenes, and J. J. Rossi. 1990. Ribozymes as potential anti-HIV-1 therapeutic agents. Science 247:1222-1225.
42. Scanlon, K. J. (ed.). 1998. Methods in molecular medicine, vol. 11. Therapeutic applications of ribozymes. Humana Press, Totowa, N.J.
43. + cells by a recombinant human immunodeficiency virus retroviral vector. J. Clin. Investig. 88:1043-1047.
44. Smith, D. W., and W. C. Weinberg. 1981. Transfer RNA in reticulocyte maturation. Biochem. Biophys. Acta 655:195-198.
45. Sullenger, B. A., T. C. Lee, C. A. Smith, and G. E. Ungers. 1990. Expression of chimeric tRNA-driven antisense transcripts renders NIH 3T3 cells highly resistant to Moloney murine leukemia virus replication. Mol. Cell Biol 10:6512-6523.
46. Sullenger, B. A., and T. R. Cech. 1993. Tethering ribozymes to a retroviral packaging signal for destruction of viral RNA. Science 262:1566-1569.
47. Taira, K., K. Nakagawa, S. Nishikawa, and K. Furukawa. 1991. Construction of a novel RNA-transcript-trimming plasmid which can be used both in vitro in place of run-off and (G)-free transcriptions and in vivo as multi-sequence transcription vectors. Nucleic Acids Res. 19:5152-5130.
48. Thomas, K. R., and M. R. Capecchi. 1987. Site-directed mutagenesis by gene targeting in mouse embryo-derived stem cells. Cell 51:503-512.
49. Thompson, D. J., F. D. Ayers, A. T. Malmstrom, L. M. Ganousis, M. B. Chowrira, L. Couture, and T. D. Stinchcomb. 1995. Improved accumulation and activity of ribozymes expressed from a tRNA-based RNA polymerase 111 promoter. Nucleic Acids Res. 23:2259-2268.
50. Turner, P. C. (ed.). 1997. Methods in molecular biology, vol. 74. Ribozyme protocols. Humana Press, Totowa, N.J.
51. Uhlenbeck, O. C. 1987. A small catalytic oligoribonucleotide. Nature 328: 596-600.
52. Yamada, O., G. Kraus, M. C. Leavitt, M. Yu, and F. Wong-Staal. 1994. Activity and cleavage site specificity of an anti-HIV-1 hairpin ribozyme in human T cells. Virology 205:121-126.
53. Yamada, O., M. Yu, J.-K. Yet, G. Kraus, D. Looney, and F. Wong-Staal. 1994. Intracellular immunization of human T cells with a hairpin ribozyme against human immunodeficiency virus type 1. Gene Ther. 1:38-45
54. Yates, J., N. Warren, D. Reisman, and B. Sugden. 1984. A cis-acting element from the Epstein-Barr viral genome that permits stable replication of recombinant plasmids in latently infected cells. Proc. Natl. Acad. Sci. USA 81:3806-3810.
55. Yu, M., J. O. Ojwang, O. Yamada, A. Hampel, J. Rappaport, D. Looney, and F. Wong-Staal. 1993. A hairpin ribozyme inhibits expression of diverse strains of human immunodeficiency virus type 1. Proc. Natl. Acad. Sci. USA 90:6340-6344.
56. Zhao, J. J., and L. Pick. 1993. Generating loss-of-function phenotypes of the fushitarazu gene with a targeted ribozyme in Drosophila. Nature 365:448-451.
57. 2+ ion with the pro-R oxygen of the scissile phosphate in the transition state of a hammerhead ribozyme-catalyzed reaction. J. Am. Chem. Soc. 118:8969-8970.
58. Zhou, D.-M., L.-H. Zhang, and K. Taira. 1997. Explanation by the double-metal-ion mechanism of catalysis for the differential metal ion effects on the cleavage rates of 5′-oxy and 5′-thio substrates by a hammerhead ribozyme. Proc. Natl. Acad. Sci. USA 94:14343-14348.
59. 2+ rescues in reactions catalyzed by a hammerhead ribozyme. FEBS Lett. 431:154-160.
60. Zhou, D.-M., and K. Taira. 1998. The hydrolysis of RNA: from theoretical calculations to the hammerhead ribozyme-mediated cleavage of RNA. Chem. Rev. 98:991-1026.