Abstract
Ribozymes are catalytic RNA molecules that cleave RNAs with high specificity. Hammerhead ribozymes are small and particularly versatile catalytic RNA molecules that cleave RNAs at specific sites (Figure 17.1A, left). The rapidly developing field of RNA catalysis is of particular current interest not only because of the intrinsic catalytic properties of ribozymes but also because of the potential utility of ribozymes as therapeutic agents and specific regulators of gene expression [16, 17, 45, 88, 89, 90, 105]. However, despite extensive efforts, the efficiency of ribozyme in vivo has generally been too low to achieve the desired biological effects. Unlike in vitro, conditions in vivo are very complex and many parameters must be taken into account, in particular conditions, the interactions of a ribozyme or its gene with intracellular proteins, which seem to be significant. Many modifications of and improvements in ribozymes, as well as methods for the introduction of ribozymes into cells, have been developed in attempts to exploit ribozymes in vivo.
Access this chapter
Tax calculation will be finalised at checkout
Purchases are for personal use only
Preview
Unable to display preview. Download preview PDF.
References
S.F. Alino, J. Crespo, M. Bobadila, M. Lejarreta, C. Blaya, and A. Crespo. Biochem. Biophys. Res. Comm., 204:1023, 1994.
S.V. Amontov and K. Taira. J. Am. Chem. Soc., 118:1624, 1996.
G.-J. Arts, M. Fornerod, and I.W. MattaJ. Curr. Biol., 6:305, 1998a.
G.-J. Arts, S. Kuersten, P. Romby, B. Ehresmann, and I.A. MattaJ. EMBO J.17, 7430, 1998b.
C. Beger, L.N. Pierce, M. Kruger, E.G. Marcusson, J.M. Robbins, P. Welsh, P.J. Welch, K. Welte, M.C. King, J.R. Barber, and F. Wong-Staal. Proc. Natl. Acad. Sci. U.S.A., 98:130, 2001.
E. Bertrand, D. Castanotto, C. Zhou, C. Carnonnelle, G.P. Lee, S. Chatterjee, T. Grange, R. Picket, D. Kohn, D. Engelke, and J.J. Rossi, RNA, 3:75, 1997.
K.R. Birikh, P.A. Heaton, and F. Eckstein. Eur. J. Biochem., 245:1, 1997.
I.C. Braun, E. Rohrbach, C. Schmitt, and E. Izaurralde. EMBO J., 18:1953, 1999.
T.R. Brummelkamp, R. Bernards, and R. Agami. Science, 296:550, 2002.
N.J. Caplen, E.W. Alton, P.G. Middleton, J.R. Dorin, B.J. Stevenson, X. Gao, S.R. Durham, P.K. Jeffery, M.E. Hodson, and C. Coutelle et al. Nature Med., 1:39, 1995.
C. Carola and F. Eckstein. Proc. Natl. Acad. Sci. U.S.A., 3, 274 (1999).
M. Cotton and M.L. Birnstiel. EMBO J. 8, 3881, 1989.
J. de la Crutz, D. Kressler, and P. Linder. Trends Biochem. Sci., 24:192, 1999.
D. Das, D. Henning, Wright, and R. Reddy. EMBO J. 7, 503, 1998.
J.A. Doudna. Curr. Biol., 8:495, 1998.
F. Eckstein, and D.M.J. Lilley, Nucleic Acids and Moleculad Biology: Catalytic RNA. (Springer-Verlag, Berlin, 1996), vol. 10.
R.P. Erickson and J. Izant. Gene Regulation: Biology of Antisense RNA and DNA. Raven Press, New York, NY, 1992.
Famulok. Curr. Opin. Struc. Biol., 9:324, 1999.
D.J. Fu, F. Benseler, and L.W. McLaughlin. J. Am. Chem. Soc., 116:4591, 1994.
E.P. Geiduschek and G.P. Tocchini-Valentini. Annu. Rev. Biochem., 57:873, 1988.
R.F. Gesteland, T.R. Cech, and J.F. Atkins. The RNA World. Spring Harbor Laboratory Press, NY, 1999.
J.M. Goldman and J.V. Melo. New Engl. J. Med., 349:1451, 2003.
P.D. Good, A.J. Krikos, X.L. Li, N.S. Lee, L. Giver, A. Ellington, J.A. Zaia, J.J. Rossi, and D.R. Engelke. Gene Ther., 4:45, 1997.
E.M. Gorden and W.F. Anderson. Curr. Opin. Biotechnol., 5:611, 1994.
Grosshand, E. Hurt and G. Simos. Genes Dev., 14:830, 2000.
P. Grüter, C. Tabernero, C. von Kobbe, C. Schmitt, C. Saavedra, A. Bachi, M. Wilm, B.K. Felber, and E. Izaurralde. Mol. Cell, 1:649, 1998.
Y.J. Hernandez, J. Wang, W.G. Kearns, S. Loiler, A. Poirier, and T.R. Flotte. J. Virol., 73:8549, 1990.
C.A. Hodge, H.V. Colot, P. Stafford, and C.N. Cole. EMBO J., 18:5778, 1999.
H. James, K. Mills, and I. Gibson. Leukemia, 10:1054, 1996.
E. Jankowsky, C.H. Gross, S. Shuman, and A.M. Pyle. Nature, 403:447, 2000.
T. Kanamori, K. Nishimaki, S. Asoh, Y. Ishibashi, I. Takata, T. Kuwabara, K. Taira, H. Yamaguchi, S. Sugihara, T. Yamazaki, Y. Ihara, K. Nakano, S. Matsuda, and S. Ohta. EMBO J., 22:2913, 2003.
Y. Kang and B.R. Cullen. Genes Dev., 13:1126, 1999.
Y. Kato, T. Kuwabara, M. Warashina, H. Toda, and K. Taira. J. Biol. Chem., 276:15378, 2001.
H. Kawasaki, J. Ohkawa, N. Tanishige, K. Yoshinari, T. Murata, K.K. Yokoyama, and K. Taira. Nucleic Acids Res., 24:3010, 1996.
H. Kawasaki, R. Eckner, T.P. Yao, K. Taira, R. Chiu, D.M. Livingston, and K.K. Yokoyama. Nature, 393:284, 1998.
H. Kawasaki and K. Taira. EMBO Rep., 3:443, 2002a.
H. Kawasaki and K. Taira. Nucleic Acids Res., 30:3609, 2002b.
H. Kawasaki, R. Onuki, E. Suyama, and K. Taira. Nat. Biotechnol., 20:376, 2002c.
H. Kawasaki and K. Taira. Nucleic Acids Res., 61:700, 2003.
M.A. Kay, L. Meuse, A.M. Gown, P. Linsley, D. Hollenbaugh, A. Aruffo, H.D. Ochs, and C.B. Wilson. Proc. Natl. Acad. Sci. U.S.A., 94:4684, 1997.
S. Koseki, J. Ohkawa, R. Yamamoto, Y. Tanabe, and K. Taira. J. Control Rel., 53:159, 1998.
S. Koseki, T. Takebe, K. Tani, S. Asano, T. Shioda, Y. Nagai, T. Shimada, J. Ohkawa, and K. Taira. J. Virol., 73:1868, 1999.
I. Kovesdi, D.E. Brough, J.T. Brude, and T.J. Wickham. Curr. Opin. Biotechnol., 8:583, 1997.
K. Kruger, P.J. Grabowski, A.J. Zaug, J. Sands, D.E. Gottschling, and T.R. Cech. Cell, 31:147, 1982.
G. Krupp and R.K. Gaur. Ribozyme: Biochemistry and Biotechnology. Eaton Publishing, MA, 2000.
U. Kutay, G. Lipowsky, E. Izaurralde, F.R. Bischoff, P. Schwarzmaier, E. Hartmann, and D. Görlich. Cell., 1:359, 1998.
T. Kuwabara, S.V. Amontov, M. Warashina, J. Ohkawa, and K. Taira. Nucleic Acids Res., 24:2302, 1996.
T. Kuwabara, M. Warashina, T. Tanabe, K. Tani, S. Asano, and K. Taira. Nucleic Acids Res., 25:3074, 1997.
T. Kuwabara, M. Warashina, M. Orita, S. Koseki, J. Ohkawa, and K. Taira. Nat. Biotechnol., 16:961, 1998a.
T. Kuwabara, M. Warashina, T. Tanabe, K. Tani, S. Asano, and K. Taira. Mol. Cell, 2:617, 1998b.
T. Kuwabara, M. Warashina, A. Nakayama, J. Ohkawa, and K. Taira. Proc. Natl. Acad. Sci. U.S.A., 96:1886, 1999.
T. Kuwabara, M. Warashina, and K. Taira. Curr. Opin. Chem. Biol., 4:669, 2000a.
T. Kuwabara, M. Warashina, and K. Taira. Trends Biotechnol., 18:462, 2000b.
T. Kuwabara, M. Warashina, S. Koseki, M. Sano, J. Ohkawa, A. Nakayama, and K. Taira. Nucleic Acids Res., 29:2780, 2001a.
T. Kuwabara, M. Warashina, M. Sano, H. Tang, F. Wong-Staal, E. Munekata, and K. Taira. Biomacromol., 2:1229, 2001b.
T. Kuwabara et al. Cell, submitted for publication.
D.S. Latchman. Mol. Biotechnol., 2:175, 1994.
C.-G. Lee, P.D. Zamore, M.R. Green, and J. Hurwitz. J. Biol. Chem., 268:16822, 1993.
N.S. Lee, T. Dohjima, G. Bauer, H. Li, M.J. Li, A. Ehsani, P. Salvaterra, and J. Rossi. Nat. Biotechnol., 20:500, 2002.
J. Li, H. Tang, T.M. Mullen, C. Westberg, T.R. Reddy, D.W. Rose, and F. Wong-Staal. Proc. Natl. Acad. Sci. U.S.A., 96:709, 1999.
Q.X. Li, J.M. Robbins, P.J. Welch, F. Wong-Staal, and J.R. Barber. Nucleic Acids Res., 28:2605, 2000.
D.M.J. Lilley. Curr. Opin. Struct. Biol., 9:330, 1999.
G. Lipowsky, F.R. Bischoff, E. Izaurralde, U. Kutay, S. Scharfer, H.J. Gross, H. Beier, and D. Görlich, D. RNA, 5:539, 1999.
D.M. Long and O.C. Uhlenbeck. Proc. Natl. Acad. Sci. U.S.A., 91:6977, 1994.
E. Lund and J.E. Dahlberg. Science, 282:2082, 1998.
M.J. McCall, P. Hendry, and P.A. Jennings. Proc. Natl. Acad. Sci. U.S.A., 89:5710, 1992.
M.T. McManus and P.A. Sharp. Nat. Rev. Genet., 3:737, 2002.
N. Milner, K.U. Mir, and E.M. Southern. Nat. Biotechnol., 15:537, 1997.
M. Miyagishi and K. Taira. Nat. Biotechnol., 20:497, 2002.
A. Mountain. A. Trends Biotechnol., 18:119, 2000.
A.J. Muller, J.C. Young, A.M. Pendergast, M. Pondel, N.R. Landau, D.R. Littman, and O.N. Witte. Cell. Biol., 11:1785, 1991.
R.J. Mumper, J.G. Duguid, K. Anwer, M.K. Barren, H. Nitta, and A.P. Rolland. Pharm. Res., 13:701, 1996.
J.A.H. Murray. Antisense RNA and DNA. Wiley-Liss Inc., New York, NY, 1992.
L. Naldini. Curr. Opin. Biotechnol., 9:457, 1998.
B. Nawrot, S. Antoszczyk, M. Maszewska, T. Kuwabara, M. Warashina, K. Taira, and W.J. Stec. Eur. J. Biochem., 270:3962, 2003.
D.L. Nelson, E. Suyama, H. Kawasaki, and K. Taira. TARGETS, 2:191, 2003.
P.C. Nowell and D.A. Humgerford. Science, 132:1497, 1960.
J. Ohkawa and K. Taira. Human Gene Ther., 11:577, 2000.
R. Onuki, A. Nagasaki, H. Kawasaki, T. Baba, T.Q.P. Ueda, and K. Taira. Proc. Natl. Acad. Sci. U.S.A., 99:14716, 2002.
R. Onuki, Y. Bando, E. Suyama, T. Katayama, H. Kawasaki, T. Baba, M. Tohyama, and K. Taira. EMBO J., submitted for publication, 2003.
K. Oshima, H. Kawasaki, Y. Soda, K. Tani, S. Asano, and K. Taira. Cancer Res., 63:6809, 2003.
C.J. Pachuk, K. Yoon, K. Moelling, and L.R. Coney. Nucleic Acids Res., 22:301, 1994.
P.J. Paddison, A.A. Caudy, and G.J. Hannon. Proc. Natl. Acad. Sci. U.S.A., 99:1443, 2002.
V. Patzel and G. Sczakiel. Nat. Biotechnol., 16:64, 1998.
C.P. Paul, P.D. Good, I. Winer, and D.R. Engelke. Nat. Biotechnol., 20:505, 2002.
J.C. Perales, T. Ferkol, M. Molas, and R.W. Hanson. Eur. J. Biochem., 226:255, 1994.
J.E. Rabinowits and J. Samulski. Curr. Opin. Biotechnol., 9:470, 1998.
J.J. Rossi and N. Sarver. Trends Biotechnol., 8:179, 1990.
J.J. Rossi. Trends Biotechnol., 13:301, 1995.
N. Sarver, E.M. Cantin, P.S. Chang, J.A. Zaida, P.A. Ladne, D.A. Stephenes, and J.J. Rossi. Science, 247:1222, 1990.
M. Scherr, K. Battmer, T. Winkler, O. Heidenreich, A. Ganser, and M. Eder. Blood, 101:1566, 2003.
C. Schmitt, C. von Kobbe, A. Bachi, N. Pante, J.P. Rodrigues, C. Boscheron, G. Rigaut, M. Wilm, B. Seraphin, M. Carmo-Fonseca, and E. Izaurralde. EMBO J., 18:4332, 1999.
W.G. Scott. Curr. Opin. Chem. Biol., 3:703, 1999.
T. Shimayama, S. Nishikawa, and K. Taira. Biochemistry, 34:3649, 1995.
E. Shtivelman, B. Lifschitz, R.P. Gale, B.A. Roe, and J. Canaani. Cell, 47:277, 1986.
G. Sui, C. Soohoo, B. Affarel, F. Gay, Y. Shi, W.C. Forrester, and Y. Shi. Proc. Natl. Acad. Sci. U.S.A., 99:5515, 2002.
B.A. Sullenger and T.R. Cech. Science, 262:1566, 1993.
E. Suyama, H. Kawasaki, T. Kasaoka, and K. Taira. Cancer Res., 63:119, 2003a.
E. Suyama, H. Kawasaki, M. Nakajima, and K. Taira. Proc. Natl. Acad. Sci. U.S.A., 100:5616, 2003b.
K. Taira, M. Warashina, T. Kuwabara, and H. Kawasaki. Functional hybrid molecules with sliding ability. Japanese Patent Application H11-316133, 1999.
T. Tanabe, T. Kuwabara, M. Warashina, K. Tani, K. Taira, and S. Asano. Nature, 406:473, 2000a.
T. Tanabe, I. Takata, T. Kuwabara, M. Warashina, H. Kawasaki, K. Tani, S. Ohta, S. Asano, and K. Taira. Biomacromol., 1:108, 2000b.
H. Tang, G.M. Gaietta, W.H. Fischer, M.H. Ellisman, and F. Wong-Staal. Science, 276:1412, 1997.
H. Tang and F. Wong-Staal. J. Biol. Chem., 275:32694, 2000.
P.C. Turner. Methods in Molecular Biology: Ribozyme Protocols. Humana Press, Totowa, NJ, 74, 1997.
T. Tuschl and F. Eckstein. Proc. Natl. Acad. Sci. U.S.A., 90:6991, 1993.
R. Wadhwa, H. Ando, H. Kawasaki, K. Taira, and S.C. Kaul. EMBO Rep., 4:595, 2003.
J.D.O. Wagner, E. Jankowsky, M. Company, A.M. Pyle, and J.N. Abelson. EMBO J., 17:2926, 1998.
N.G. Walter and J.M. Burke. Curr. Opin. Chem. Biol., 2:24, 1998.
M. Warashina, D.M. Zhou, T. Kuwabara, and K. Taira. Ribozyme structure and function: Comprehensive Natural Products Chemistry. Elsevier Science Ltd., Oxford, vol. 6, p. 235, 1999.
M. Warashina, T. Kuwabara, and K. Taira. Structure, 8:207, 2000a.
M. Warashina, Y. Takagi, W.J. Stec, and K. Taira. Curr. Opin. Biotechnol., 11:354, 2000b.
M. Warashina, T. Kuwabara, Y. Kato, M. Sano, and K. Taira. Proc. Natl Acad. Sci. U.S.A., 98:5572, 2001.
P.J. Welch, E.G. Marcusson, Q.K. Li, C. Begar, M. Kruger, C. Zhou, M. Leavitt, F. Wong-Staal, and J.R. Barber. Genomics, 66:274, 2000.
C. Westberg, J.P. Yang, H. Tang, T.R. Reddy, and F. Wong-Staal. J. Biol. Chem., 275:21396, 2000.
N. Wu and M.M. Ataai. Curr. Opin. Biotechnol., 11:205, 2000.
Y. Yang, Q. Li, H.C. Ertl, and J.M. Wilson. J. Virol., 69:200, 1995.
J.Y. Yu, S.L. DeRuiter, and D.L. Turner. Proc. Natl. Acad. Sci. U.S.A., 99:6047, 2002.
D.M. Zhou and K. Taira. Chem. Rev., 98:991, 1998.
M. Zucker. Methods Enzymol., 180:262, 1989.
Author information
Authors and Affiliations
Editor information
Editors and Affiliations
Rights and permissions
Copyright information
© 2006 Springer Science + Business Media, LLC
About this chapter
Cite this chapter
Shiota, M., Miyagishi, M., Taira, K. (2006). Engineered Ribozymes: Efficient Tools for Molecular Gene Therapy and Gene Discovery. In: Ferrari, M., Ozkan, M., Heller, M.J. (eds) BioMEMS and Biomedical Nanotechnology. Springer, Boston, MA. https://doi.org/10.1007/978-0-387-25843-0_17
Download citation
DOI: https://doi.org/10.1007/978-0-387-25843-0_17
Publisher Name: Springer, Boston, MA
Print ISBN: 978-0-387-25564-4
Online ISBN: 978-0-387-25843-0
eBook Packages: EngineeringEngineering (R0)