Skip to main content

Advertisement

Log in

Ribozymes: A modern tool in medicine

  • Review
  • Published:
Journal of Biomedical Science

Abstract

Since the discovery of ribozymes and self-splicing introns, it has been estimated that this biological property of RNA combined with other recombinant DNA technologies would become a tool to combat viral diseases and control oncogenes. These goals seem like a distinct possibility now. However, there is still a lot to be learned about the mobility of RNA inside the cells and the cellular factors that can impede ribozyme action in order to capitalize fully on the targeted RNA inactivation property of ribozymes. The most effective approach to maximize ribozyme function in a complex intracellular environment is to understand as much as possible about the intracellular fate of the RNA that is being targeted. As new techniques in cell biology become available, such understanding will be less problematic. Fundamental studies of ribozyme structure and mechanism of catalysis are flourishing both at the academic and industrial level and it can be expected that many new developments will continue to take place in these areas in the near future. Here, we review the design, stability and therapeutic application of these technologies illustrating relevant gene targets and applications in molecular medicine. Relevant problems in implementation of the technology, group I and II introns and the differences in applications, ribozyme structure and the application of this technology to virus attack and oncogene downregulation are discussed. Also some of the latest RNA-based technologies such as siRNA, RNA/DNA duplexes and RNA decoys have been introduced.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Similar content being viewed by others

References

  1. Baringa M. Ribozyme linking messenger. Science 262:1512–1512;1993.

    Google Scholar 

  2. Belfort M. Phage T4 introns: Self-splicing and mobility. Annu Rev Genet 24:363–385;1990.

    Google Scholar 

  3. Bramlage B, Luzi E, Eckstein F. HIV-1 LTR as a target for synthetic ribozyme-mediated inhibition of gene expression: Site selection and inhibition in cell culture. Nucleic Acids Res 28:4059–4067;2000.

    Google Scholar 

  4. Cech TR. Structural biology. The ribosome is a ribozyme. Science 289:878–879;2000.

    Google Scholar 

  5. Cech TR, Herschlag D. Group I ribozyme: Structure recognition catalysis strategies and comparative mechanistic analysis; in Eckstein F, Lilley DMJ (eds): Nucleic Acid and Molecular Biology. New York, Springer, Catalytic RNA, vol 10, pp 1–17, 1996.

    Google Scholar 

  6. Chen Y, Li X, Gegenheimer P. Ribonuclease P catalysis requires Mg2+ coordinated to the pro-RP oxygen of the scissile bond. Biochemistry 36:2425–2438;1997.

    Google Scholar 

  7. Choo Y, Sanchez-Garcia I, Klug A. In vivo repression by a site-specific DNA-binding protein designed against an oncogenic sequence. Nature 372:642–645;1994.

    Google Scholar 

  8. Cobaleda C, Perez-Losada J, Sanchez-Garcia I. Chromosomal abnormalities and tumor development: From gene to therapeutic mechanisms. Bioassay 20:922;1998.

    Google Scholar 

  9. Cobeleda C, Sanchez-Garcia I. In vivo inhibition by a site-specific catalytic RNA subunit of RNase P designed against the BCR-ABL oncogenic products: A novel approach for cancer treatment. Blood 95:731–737;2000.

    Google Scholar 

  10. Cogoni C, Macino G. Post-transcriptional gene silencing across kingdoms. Curr Opin Genet Dev 10:638–643;2000.

    Google Scholar 

  11. Collins RA. The Neurospora varkud satellite ribozyme. Biochem Soc Trans 30:1122–1126;2001.

    Google Scholar 

  12. Collins CA, Guthrie C. The question remains: Is the spliceosome a ribozyme? Nat Struct Biol 10:850–854;2000.

    Google Scholar 

  13. Collins RA, Saville BJ. Independent transfer of mitochondrial chromosomes and plasmids during unstable vegetative fusion in Neurospora. Nature 345:177–179;1990.

    Google Scholar 

  14. Cornberg M, Wedemeyer H, Manns MP. Hepatitis C: Therapeutic perspectives. Forum 11:154–162;2001.

    Google Scholar 

  15. Dropulic B, Jeang KT. Gene therapy for human immunodeficiency virus infection: Genetic antiviral strategies and targets for intervention. Hum Gene Ther 5:927–939;1994.

    Google Scholar 

  16. Dropulic B, Lin NH, Martin MA, Jeang KT. Functional characterization of a U5 ribozyme: Intracellular suppression of human immunodeficiency virus type 1 expression. J Virol 66:1432–1441;1992.

    Google Scholar 

  17. Earnshaw DJ, Gait MJ. Hairpin ribozyme cleavage catalyzed by aminoglycoside antibiotics and the polyamine spermine in the absence of metal ions. Nucleic Acid Res 26:5551–5561;1998.

    Google Scholar 

  18. Elbashir SM, Harborth J, Lendeckel W, Yalcin A, Weber K, Tuschl T. Duplexes of 21-nucleotide RNAs mediate RNA interference in cultured mammalian cells. Nature 411:494–498;2001.

    Google Scholar 

  19. Famulok M, Mayer G. Aptamers as tools in molecular biology and immunology. Curr Top Microbiol Immunol 243:123–136;1999.

    Google Scholar 

  20. Famulok M, Mayer G, Blind M. Nucleic acid aptamers-from selection in vitro to applications in vivo. Acc Chem Res 33:591–599;2000.

    Google Scholar 

  21. Feere D, Amare AR, Zhou K, Daudna JA. Crystal structure of hepatitis delta virus ribozyme. Nature 395:567–574;1998.

    Google Scholar 

  22. Fire A, Xu S, Montgomery MK, Kostas SA, Driver SE, Mello CC. Potent and specific genetic interference by double-stranded RNA inCaenorhabditis elegans. Nature 391:806–811;1998.

    Google Scholar 

  23. Forster AC, Altman S. External guide sequence for and RNA enzyme. Science 249:783–786;1990.

    Google Scholar 

  24. Foster AC, Sympson RH. Self cleavage of virusoid RNA is performed by the proposed 55-nucleotide active site. Cell 50:9–16;1987.

    Google Scholar 

  25. Giordano V, Jin DY, Rekosh D, Jeang KT. Intravirion targeting of a functional anti-human immunodeficiency virus ribozyme directed to pol. Virology 267:174–184;2000.

    Google Scholar 

  26. Hampel A, Tritz R, Hicks M, Cruz P. Hairpin catalytic RNA. Nucleic Acid Res 18:299–304;1990.

    Google Scholar 

  27. Hegg L, Afedor MJ. Kinetic and thermodynamics of intermolecular catalysis by hairpin ribozymes. Biochemistry 34:15813–15828;1995.

    Google Scholar 

  28. Hsieh SY, Taylor J. Delta virus is a vector, for the delivery of biologically active RNA: Possibly a ribozyme specific for chronic hepatitis B virus infection. Adv Exp Med Biol 312:125–128;1992.

    Google Scholar 

  29. Jacque JM, Triques K, Stevenson M. Modulation of HIV-1 replication by RNA interference. Modulation of HIV-1 replication by RNA interference. Nature 418:435–438;2002.

    Google Scholar 

  30. Khan AU, Ahmad M, Lal SK. Restoration of mRNA splicing by a second-site intragenic supressor in the T4 ribonucleotide reductase (small subunit) self-splicing intron. Biochem Biophys Res Comm 268:359–364;2000.

    Google Scholar 

  31. Khan AU, Lal SK, Ahmad M. Isolation and characterization of EMS induced splicing defective point mutations within the intron of the nrdB gene of bacteriophage T4. Biochem Biophys Res Comm 242:10–15;1998.

    Google Scholar 

  32. Khan AU, Lal SK. Ribozyme: A structure and potential applications in medicine. Med Sci Res 27:507–512;1999.

    Google Scholar 

  33. Khan AU, Lal SK. The white halo plaque phenotype of bacteriophage T4: Its uses and applications in screening and mapping of splicing-defective mutants. J Biochem Mol Biol Biophys 5:237–242;2001.

    Google Scholar 

  34. Kirsebom LA. RNase P RNA-mediated catalysis. Biochem Soc Trans 30:1153–1158;2001.

    Google Scholar 

  35. Koizumi M, Ozawa Y, Yagi R, Nishigaki T, Keneko M, Oka SI, Kimura S, Iwamato A, Komatso Y, Ohtsuka E. Design and anti-HIV-I activity of hammerhead and hairpin ribozymes containing a stable loop. Nucl Nucl 17:207–218;1998.

    Google Scholar 

  36. Koizumi M, Ozawa Y, Yagi R, Nishigaki T, Kamatsua Y, Ohtsuaka E. Design and anti-HIV-1 activity of ribozymes that cleave HIV-1 LTR. Nucleic Acids Symp Ser 34:125–126;1995.

    Google Scholar 

  37. Koizumi M, Soukup GA, Kerr JN, Breaker RR. Allosteric selection of ribozymes that respond to the second messengers cGMP and cAMP. Nat Struct Biol 6:1062–71;1999.

    Google Scholar 

  38. Kuo MY-P, Sharmeen L, Dinter-Gottlieb G, Taylor J. Characterization of self-cleavage RNA sequences on the genome and anti-genome of human hepatitis delta virus. J Virol 62:4439–4444;1988.

    Google Scholar 

  39. Kurz M, Breaker RR. In vitro selection of nucleic acid enzymes. Curr Top Microbiol Immunol 243:137–158;1999.

    Google Scholar 

  40. Kwon HY, Lal SK, Hall DH. A novel approach for isolation and mapping of second-site revertants of intron mutations in a ribonucleotide reductase encoding gene (nrdB) of bacteriophage T4 using the white halo plaque phenotype. Nucl Nucl 14:1811–1821;1995.

    Google Scholar 

  41. Lal SK, Hall DH. A novel approach for isolation and mapping of intron mutations in a ribonucleotide reductase encoding gene (nrdB) of bacteriophage T4 using the white halo plaque phenotype. Biochem Biophys Res Commun 196:943–949;1993.

    Google Scholar 

  42. Lal SK, Hall DH. Functional and sequence analysis of splicing defective nrdB mutants of bacteriophage T4 reveal new bases and a new sub-domain required for group I intron self-splicing. Biochim Biophys Acta 1350:89–97;1997.

    Google Scholar 

  43. Lee NS, Dohjima T, Bauer G, Li H, Li MJ, Ehsani A, Salvaterra P, Rossi J. Expression of small interfering RNAs targeted against HIV-1 rev transcripts in human cells. Nat Biotechnol 20:500–505;2002.

    Google Scholar 

  44. Liu F, Altman S. Requirements for cleavage by a modified RNase P of a small model substrate. Nucleic Acid Res 24:2690;1996.

    Google Scholar 

  45. Macejak DG, Jensen KL, Jamison SF, Domenico K, Roberts EC, Chaudhary N, von Carlowitz I, Bellon L, Tong MJ, Conrad A, Pavco PA, Blatt LM. Inhibition of hepatitis C virus (HCV)-RNA-dependent translation and replication of a chimeric HCV poliovirus using synthetic stabilized ribozymes. Hepatology 31:769–776;2000.

    Google Scholar 

  46. Macejak DG, Jensen KL, Pavco PA, Phipps KM, Heinz BA, Colacino JM, Blatt LM. Enhanced antiviral effect in cell culture of type 1 interferon and ribozymes targeting HCV RNA. J Viral Hepat 8:400–405;2001.

    Google Scholar 

  47. Muotri AR, da Veiga Pereira L, dos Reis Vasques L, Menck CF. Ribozyme and anti-gene therapy: How a catalytic RNA can be used to inhibit gene function. Gene 37:303–310;1999.

    Google Scholar 

  48. Murray JB, Seyhan AA, Walter NG, Burke JM, Scott WG. The hammerhead, hairpin and VS ribozyme are catalytically proficient in monovalent cations alone. Chem Biol 5:587–595;1998.

    Google Scholar 

  49. Netter HJ, Hsieh SY, Lazinski D, Taylor, H. Modified BDV as a vector for the delivery of biologically active RNAs. Prog Clin Biol Res 382:373–376;1993.

    Google Scholar 

  50. Novina CD, Murray MF, Dykxhoorn DM, Beresford PJ, Riess J, Lee SK, Collman RG, Lieberman J, Shankar P, Sharp PA. siRNA-directed inhibition of HIV-1 infection. Nat Med 8:681–686;2002.

    Google Scholar 

  51. Piganeau N, Jenne A, Thuillier V, Famulok M. An allosteric ribozyme regulated by doxycyline. Chem Int 40:3503;2001.

    Google Scholar 

  52. Rossi JJ. The application of ribozymes to HIV infection. Curr Opin Mol Ther 1:316–322;1999.

    Google Scholar 

  53. Sanchez-Garcia I. Consequences of chromosomal translocations in tumor development. Annu Rev Genet 31:429–453;1997.

    Google Scholar 

  54. Sarver N, Cantin EM, Chang PS, Zaia JA, Stephens DA, Rossi JJ. Ribozymes as potential anti-HIV-1 therapeutic agents. Science 247:1222–1225;1990.

    Google Scholar 

  55. Shih I, Been MD. Kinetic scheme for intermolecular RNA cleavage by a ribozyme derived from hepatitis delta virus RNA. Biochemistry 39:9055–9066;2000.

    Google Scholar 

  56. Smith SM, Maldarelli F, Jeang KT. Efficient expression by an alphavirus replicon of a functional ribozyme targeted to human immunodeficiency virus type 1. J Virol 71:9713–9721;1997.

    Google Scholar 

  57. Stage-Zimmermann TK, Uhlenbeck OC. Hammerhead ribozyme kinetics. RNA 4:875–889;1998.

    Google Scholar 

  58. Takagi Y, Suyama E, Kawasaki H, Miyagishi M, Taira K. Mechanism of action of hammer-head ribozymes and their applications in vivo: Rapid identification of functional genes in the post-genome era by novel hybrid ribozyme libraries. Biochem Soc Trans 30:1145–1149;2001.

    Google Scholar 

  59. Uchimaru T, Uebayasi M, Tanabe K, Taira K. Theoretical analysis on the role of Mg2+ ions in ribozyme reactions. FASEB J 7:137–142;1993.

    Google Scholar 

  60. Vaish NK, Heaton PA, Fedorova O, Eckstein F. In vitro selection of a purine nucleotide-specific hammerheadlike ribozyme. Proc Natl Acad Sci 95:2158–2162;1998.

    Google Scholar 

  61. Wagner M, Fingerhut C, Gross HJ, Schon A. The first phytoplasma RNase P RNA provides new insights into the sequence requirements of this ribozyme. Nucleic Acids Res 29:2661–2665;2001.

    Google Scholar 

  62. Wang L, Witherington C, King A, Gerlach WL, Carr A, Penny R, Cooper D, Symonds G, Sun L-Q. Preclinical characterization of an anti-tat ribozyme for therapeutic application. Human Gene Ther 9:1283–1291;1998.

    Google Scholar 

  63. Warashina M, Takagi Y, Stee WJ, Taira K. Differences among mechanisms of ribozymecatalyzed reaction. Curr Opin Biotechnol 11:354–362;2000.

    Google Scholar 

  64. Wianny F, Zernicka-Goetz M. Specific interference with gene function by double-stranded RNA in early mouse development. Nat Cell Biol 2:70–75;2000.

    Google Scholar 

  65. Wu XS, Liu DP, Liang CC. Prospects of chimeric RNA-DNA oligonucleotides in gene therapy. J Biomed Sci 8:439–445;2001.

    Google Scholar 

  66. Young KJ, Gill F, Gtrasby JA. Metal ions play a passive role in the hairpin ribozyme catalysed reaction. Nucleic Acid Res 25:3760–3766;1997.

    Google Scholar 

Download references

Author information

Authors and Affiliations

Authors

Rights and permissions

Reprints and permissions

About this article

Cite this article

Khan, A.U., Lal, S.K. Ribozymes: A modern tool in medicine. J Biomed Sci 10, 457–467 (2003). https://doi.org/10.1007/BF02256107

Download citation

  • Received:

  • Accepted:

  • Issue Date:

  • DOI: https://doi.org/10.1007/BF02256107

Key Words

Navigation