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Volumn 16, Issue 1, 1998, Pages 64-68

Theoretical design of antisense RNA structures substantially improves annealing kinetics and efficacy in human cells

Author keywords

RNA mapping; RNA RNA hybridization; Structure function

Indexed keywords

COMPLEMENTARY RNA;

EID: 0031963785     PISSN: 10870156     EISSN: None     Source Type: Journal    
DOI: 10.1038/nbt0198-64     Document Type: Article
Times cited : (73)

References (41)
  • 1
    • 0022555863 scopus 로고
    • The role of antisense RNA in gene regulation
    • Green, P.J., Pines, O., and Inouye, M. 1986. The role of antisense RNA in gene regulation. Annu. Rev. Biochem. 55:569-597.
    • (1986) Annu. Rev. Biochem. , vol.55 , pp. 569-597
    • Green, P.J.1    Pines, O.2    Inouye, M.3
  • 2
    • 0024211331 scopus 로고
    • Antisense RNA: Its functions and applications in gene regulation - A review
    • Inouye, M. 1988. Antisense RNA: Its functions and applications in gene regulation - a review. Gene 72:25-34.
    • (1988) Gene , vol.72 , pp. 25-34
    • Inouye, M.1
  • 3
    • 0028556367 scopus 로고
    • Dynamic interactions in the spliceosome
    • Madhani, H.D. and Guthrie, C. 1994. Dynamic interactions in the spliceosome. Annu. Rev. Genet. 28:1-46.
    • (1994) Annu. Rev. Genet. , vol.28 , pp. 1-46
    • Madhani, H.D.1    Guthrie, C.2
  • 4
    • 85041131924 scopus 로고
    • Antisense RNA control in bacteria, phages and plasmids
    • Wagner, E.G.H. and Simons, R.W. 1994. Antisense RNA control in bacteria, phages and plasmids. Annu. Rev. Microbiol. 48:713-742.
    • (1994) Annu. Rev. Microbiol. , vol.48 , pp. 713-742
    • Wagner, E.G.H.1    Simons, R.W.2
  • 6
    • 0029805590 scopus 로고    scopus 로고
    • Antisense approaches to the gene therapy of cancer - 'Recnac'
    • Gibson, I.1996 Antisense approaches to the gene therapy of cancer - 'Recnac'. Cancer Metastasis Rev. 15:287-299.
    • (1996) Cancer Metastasis Rev. , vol.15 , pp. 287-299
    • Gibson, I.1
  • 8
    • 0024844260 scopus 로고
    • Insertion sequence IS10 antisense pairing initiates by an interaction between the 5′ end of the target RNA and a loop in the anti-sense RNA
    • Kittle, J.D., Simons, R.W., and Kleckner, N. 1989. Insertion sequence IS10 antisense pairing initiates by an interaction between the 5′ end of the target RNA and a loop in the anti-sense RNA. J. Mol. Biol. 210:561-527.
    • (1989) J. Mol. Biol. , vol.210 , pp. 561-1527
    • Kittle, J.D.1    Simons, R.W.2    Kleckner, N.3
  • 9
    • 0025104511 scopus 로고
    • Control of replication of plasmid R1 : Structures and sequences of the antisense RNA, CopA, required for its binding to the target RNA, CopT
    • Persson, C., Wagner, E.G., and Nordström, K. 1990. Control of replication of plasmid R1 : structures and sequences of the antisense RNA, CopA, required for its binding to the target RNA, CopT. EMBO J. 9:3767-3775.
    • (1990) EMBO J. , vol.9 , pp. 3767-3775
    • Persson, C.1    Wagner, E.G.2    Nordström, K.3
  • 10
    • 0025274894 scopus 로고
    • Control of ColE1 plasmid replication. Intermediates in the binding of RNA I and RNA II
    • Tomizawa, J. 1990. Control of ColE1 plasmid replication. Intermediates in the binding of RNA I and RNA II. J. Mol. Biol. 212:683-694.
    • (1990) J. Mol. Biol. , vol.212 , pp. 683-694
    • Tomizawa, J.1
  • 11
  • 12
    • 0030203333 scopus 로고    scopus 로고
    • In vitro and in vivo action of antisense RNA
    • Nellen, W. and Sczakiel, G. 1996. in vitro and in vivo action of antisense RNA. Molecular Biotechnology 6:7-15.
    • (1996) Molecular Biotechnology , vol.6 , pp. 7-15
    • Nellen, W.1    Sczakiel, G.2
  • 13
    • 0027238265 scopus 로고
    • In vitro selection of fast-hybridizing and effective antisense RNAs directed against the human immunodeficiency virus type 1
    • Rittner, K., Burmester, C., and Sczakiel, G. 1993. in vitro selection of fast-hybridizing and effective antisense RNAs directed against the human immunodeficiency virus type 1. Nucl. Acids Res. 21:1381-1337.
    • (1993) Nucl. Acids Res. , vol.21 , pp. 1381-11337
    • Rittner, K.1    Burmester, C.2    Sczakiel, G.3
  • 14
    • 0024802862 scopus 로고
    • The unusual stability of the IS 10 anti-sense RNA is critical for its function and is determined by the structure of its stem-domain
    • Case, C.C., Roels, S.M., Jensen, P.D., Lee, J., Kleckner. N., and Simons. R.W. 1989. The unusual stability of the IS 10 anti-sense RNA is critical for its function and is determined by the structure of its stem-domain. EMBO J. 8:4297-4305.
    • (1989) EMBO J. , vol.8 , pp. 4297-4305
    • Case, C.C.1    Roels, S.M.2    Jensen, P.D.3    Lee, J.4    Kleckner, N.5    Simons, R.W.6
  • 15
    • 0027058934 scopus 로고
    • The effect of loop size in antisense and target RNAs on the efficiency of antisense RNA control
    • Hjalt, T. and Wagner, E.G. 1992. The effect of loop size in antisense and target RNAs on the efficiency of antisense RNA control. Nucl. Acids Res. 20:6723-6732.
    • (1992) Nucl. Acids Res. , vol.20 , pp. 6723-6732
    • Hjalt, T.1    Wagner, E.G.2
  • 16
    • 0028914927 scopus 로고
    • IS10 Antisense control in vivo is affected by mutations throughout the region of complementarity between the interacting RNAs
    • Jain, C. 1995. IS10 Antisense control in vivo is affected by mutations throughout the region of complementarity between the interacting RNAs. J. Mol. Biol. 246:585-594.
    • (1995) J. Mol. Biol. , vol.246 , pp. 585-594
    • Jain, C.1
  • 17
    • 0029938209 scopus 로고    scopus 로고
    • Potent antisense oligonucleotides to the human multidrug resistance-1 mRNA are rationally selected by mapping RNA-accessible sites with oligonucleotide libraries
    • Ho, S.P., Britton, D.H., Stone, B.A., Behrens, D.L., Leffet, L.M., Hobbs, F.W., et al. 1996. Potent antisense oligonucleotides to the human multidrug resistance-1 mRNA are rationally selected by mapping RNA-accessible sites with oligonucleotide libraries. Nucl. Acids Res. 24:1901-1907.
    • (1996) Nucl. Acids Res. , vol.24 , pp. 1901-1907
    • Ho, S.P.1    Britton, D.H.2    Stone, B.A.3    Behrens, D.L.4    Leffet, L.M.5    Hobbs, F.W.6
  • 18
    • 0030902471 scopus 로고    scopus 로고
    • Selecting effective antisense reagents on combinatorial oligonucleotide arrays
    • Milner, N., Mir, K.U., and Southern, E.M. 1997. Selecting effective antisense reagents on combinatorial oligonucleotide arrays. Nature Biotechnology 15:537-541.
    • (1997) Nature Biotechnology , vol.15 , pp. 537-541
    • Milner, N.1    Mir, K.U.2    Southern, E.M.3
  • 19
    • 0031032603 scopus 로고    scopus 로고
    • Combinatorial screening and rational optimization for hybridization to folded hepatitis C virus RNA of oligonucleotides with biological antisense activity
    • Lima, W.F., Brown-Driver, V., Fox, M., Hanecak, R., and Bruice, T.W. 1997. Combinatorial screening and rational optimization for hybridization to folded hepatitis C virus RNA of oligonucleotides with biological antisense activity. J. Biol. Chem. 272:626-638.
    • (1997) J. Biol. Chem. , vol.272 , pp. 626-638
    • Lima, W.F.1    Brown-Driver, V.2    Fox, M.3    Hanecak, R.4    Bruice, T.W.5
  • 20
    • 0030952735 scopus 로고    scopus 로고
    • Probing accessible sites for ribozymes on human acetylcholinesterase RNA
    • Birikh, K.R., Berlin, Y.A., Soreq, H., and Eckstein, F. 1997. Probing accessible sites for ribozymes on human acetylcholinesterase RNA. RNA 3:429-437.
    • (1997) RNA , vol.3 , pp. 429-437
    • Birikh, K.R.1    Berlin, Y.A.2    Soreq, H.3    Eckstein, F.4
  • 21
    • 0030660155 scopus 로고    scopus 로고
    • Implications of RNA structure on the annealing of a potent antisense RNA directed against the human immunodeficiency virus type 1
    • Eckardt, S., Romby, P.. and Sczakiel, G. 1997. Implications of RNA structure on the annealing of a potent antisense RNA directed against the human immunodeficiency virus type 1. Biochemistry 36:12711-12721.
    • (1997) Biochemistry , vol.36 , pp. 12711-12721
    • Eckardt, S.1    Romby, P.2    Sczakiel, G.3
  • 22
    • 0342547300 scopus 로고    scopus 로고
    • Theoretical and experimental selection parameters for HBV-directed antisense RNA are related to increased RNA-RNA annealing
    • Patzel, V., zu Putlitz, J., Wieland, S., Bium, H.E., and Sczakiel, G. 1997. Theoretical and experimental selection parameters for HBV-directed antisense RNA are related to increased RNA-RNA annealing. Biol. Chem. Hoppe-Seyler 378:539-543.
    • (1997) Biol. Chem. Hoppe-seyler , vol.378 , pp. 539-543
    • Patzel, V.1    Zu Putlitz, J.2    Wieland, S.3    Bium, H.E.4    Sczakiel, G.5
  • 25
    • 0027289572 scopus 로고
    • Computer-aided search for antisense RNA target sequences of the human immunodeficiency virus type 1
    • Sczakiel, G., Homann, M., and Rittner, K. 1993. Computer-aided search for antisense RNA target sequences of the human immunodeficiency virus type 1. Antisense Res. Dev. 3:45-52.
    • (1993) Antisense Res. Dev. , vol.3 , pp. 45-52
    • Sczakiel, G.1    Homann, M.2    Rittner, K.3
  • 26
    • 0025872982 scopus 로고
    • Identification and analysis of antisense RNA target regions of the human immunodeficiency virus type 1
    • Rittner, K. and Sczakiel, G. 1991. Identification and analysis of antisense RNA target regions of the human immunodeficiency virus type 1. Nucl. Acids Res. 19:1421-1426.
    • (1991) Nucl. Acids Res. , vol.19 , pp. 1421-1426
    • Rittner, K.1    Sczakiel, G.2
  • 27
    • 0021760092 scopus 로고
    • A comprehensive set of sequence analysis programs for the VAX
    • Devereux, J., Haeberli, P., and Smithies, O. 1984. A comprehensive set of sequence analysis programs for the VAX. Nucl. Acids Res. 12:387-395.
    • (1984) Nucl. Acids Res. , vol.12 , pp. 387-395
    • Devereux, J.1    Haeberli, P.2    Smithies, O.3
  • 28
    • 0021532353 scopus 로고
    • Conformational transitions in viroids and virusoids: Comparison of results from energy minimization algorithm and from experimental data
    • Steger, G., Hofmann, H., Fortsch, J., Gross, H.J., Randles, J.W., Sänger, H.L., and Riesner, D. 1984. Conformational transitions in viroids and virusoids: comparison of results from energy minimization algorithm and from experimental data. J. Biomol. Struct. Dyn. 2:543-571.
    • (1984) J. Biomol. Struct. Dyn. , vol.2 , pp. 543-571
    • Steger, G.1    Hofmann, H.2    Fortsch, J.3    Gross, H.J.4    Randles, J.W.5    Sänger, H.L.6    Riesner, D.7
  • 29
    • 0027500955 scopus 로고
    • Complementary large loops determine the rate of RNA duplex formation in vitro in the case of an effective antisense RNA directed against the human immunodeficiency virus type 1
    • Homann, M., Rittner, K., and Sczakiel, G. 1993. Complementary large loops determine the rate of RNA duplex formation in vitro in the case of an effective antisense RNA directed against the human immunodeficiency virus type 1. J. Mol. Biol. 233:7-15.
    • (1993) J. Mol. Biol. , vol.233 , pp. 7-15
    • Homann, M.1    Rittner, K.2    Sczakiel, G.3
  • 30
    • 0024095319 scopus 로고
    • Control of replication of plasmid R1: Kinetics of in vitro interaction between the antisense RNA, CopA, and its target, CopT
    • Persson, C., Wagner, E.G., and Nordstrom, K. 1988. Control of replication of plasmid R1: kinetics of in vitro interaction between the antisense RNA, CopA, and its target, CopT. EMBO J. 7:3279-3288.
    • (1988) EMBO J. , vol.7 , pp. 3279-3288
    • Persson, C.1    Wagner, E.G.2    Nordstrom, K.3
  • 31
    • 0021645945 scopus 로고
    • Control of ColE1 plasmid replciation: The process of binding of RNA I to the primer transcript
    • Tomizawa, J. 1984. Control of ColE1 plasmid replciation: the process of binding of RNA I to the primer transcript. Cell 38:861-870.
    • (1984) Cell , vol.38 , pp. 861-870
    • Tomizawa, J.1
  • 32
    • 0030969442 scopus 로고    scopus 로고
    • Real-time monitoring of hairpin ribozyme kinetics through base-specific quenching of fluorescein-labeled substrates
    • Walter, N.G. and Burke, J.M. 1997. Real-time monitoring of hairpin ribozyme kinetics through base-specific quenching of fluorescein-labeled substrates. RNA 3:392-404.
    • (1997) RNA , vol.3 , pp. 392-404
    • Walter, N.G.1    Burke, J.M.2
  • 33
    • 0015846852 scopus 로고
    • Thermodynamics and kinetics of the helix-coil trasnitions of oligomers containing GC base pairs
    • Pörschke, D., Uhlenbeck, O.C., and Martin, F.H. 1973. Thermodynamics and kinetics of the helix-coil trasnitions of oligomers containing GC base pairs. Biopolymers 12:1313-1335.
    • (1973) Biopolymers , vol.12 , pp. 1313-1335
    • Pörschke, D.1    Uhlenbeck, O.C.2    Martin, F.H.3
  • 34
    • 0030813878 scopus 로고    scopus 로고
    • The subcellular localization and length of hammerhead ribozymes determine efficacy in human cells
    • Hormes, R., Homann, M., Oelze, I., Tabler, M., Marschall, R., Eckstein, F., and Sczakiel, G. 1997. The subcellular localization and length of hammerhead ribozymes determine efficacy in human cells, Nucl. Acids Res. 25:769-775.
    • (1997) Nucl. Acids Res. , vol.25 , pp. 769-775
    • Hormes, R.1    Homann, M.2    Oelze, I.3    Tabler, M.4    Marschall, R.5    Eckstein, F.6    Sczakiel, G.7
  • 35
    • 0014986071 scopus 로고
    • Excluded volume effects on the rate of renaturation of DNA
    • Wetmur, J.G. 1971. Excluded volume effects on the rate of renaturation of DNA. Biopolymers 10:601-613.
    • (1971) Biopolymers , vol.10 , pp. 601-613
    • Wetmur, J.G.1
  • 36
    • 0028209262 scopus 로고
    • Mechanism of post-segregational killing: Sok antisense RNA interacts with Hok mRNA via its 5′-end single-stranded leader and competes with the 3′-end of Hok mRNA for binding to the mok translational initiation region
    • Thisted, T., Sorensen, N.S., Wagner, E.G., and Gerdes, K. 1994. Mechanism of post-segregational killing: Sok antisense RNA interacts with Hok mRNA via its 5′-end single-stranded leader and competes with the 3′-end of Hok mRNA for binding to the mok translational initiation region. EMBO J. 15:1960-1968.
    • (1994) EMBO J. , vol.15 , pp. 1960-1968
    • Thisted, T.1    Sorensen, N.S.2    Wagner, E.G.3    Gerdes, K.4
  • 37
    • 0021645946 scopus 로고
    • Control of ColE1 plasmid replication: Enhancement of binding of RNA I to the primer transcript by the Rom protein
    • Tomizawa, J., and Som, T. 1984. Control of ColE1 plasmid replication: enhancement of binding of RNA I to the primer transcript by the Rom protein. Cell 38:871-878.
    • (1984) Cell , vol.38 , pp. 871-878
    • Tomizawa, J.1    Som, T.2
  • 38
    • 2642695734 scopus 로고
    • Mechanism of IS10 antisense RNA pairing in vitro and in vivo
    • Melton, D.A. (ed.) Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY
    • Kittle, J.D., and Kleckner, N. 1988. Mechanism of IS10 antisense RNA pairing in vitro and in vivo. pp. 1-7 in Antisense RNA and DNA. Melton, D.A. (ed.) Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
    • (1988) Antisense RNA and DNA , pp. 1-7
    • Kittle, J.D.1    Kleckner, N.2
  • 39
    • 0023651444 scopus 로고
    • Oligoribonucleotide synthesis using T7 RNA polymerase and synthetic DNA templates
    • Milligan. J.F., Groebe, D.R., Witherell, G.W., and Uhlenbeck, O.C. 1987. Oligoribonucleotide synthesis using T7 RNA polymerase and synthetic DNA templates. Nucl. Acids Res. 15:8783-8798.
    • (1987) Nucl. Acids Res. , vol.15 , pp. 8783-8798
    • Milligan, J.F.1    Groebe, D.R.2    Witherell, G.W.3    Uhlenbeck, O.C.4
  • 40
    • 0023392945 scopus 로고
    • High-efficiency transformation of mammalian cells by plasmid DNA
    • Chen, C., and Okayama, H. 1987. High-efficiency transformation of mammalian cells by plasmid DNA. Mol. Cell. Biol. 7:2745-2752.
    • (1987) Mol. Cell. Biol. , vol.7 , pp. 2745-2752
    • Chen, C.1    Okayama, H.2
  • 41
    • 0022495870 scopus 로고
    • Production of acquired immunodeficiency syndrome-associated retrovirus in human and nonhuman cells transfected with an infectious molecular clone
    • Adachi, A., Gendelman, H.E., Koenig, S., Folks, T., Willey, R., Rabson, A., and Martin, M.A. 1986. Production of acquired immunodeficiency syndrome-associated retrovirus in human and nonhuman cells transfected with an infectious molecular clone. J. Virol. 59:284-291.
    • (1986) J. Virol. , vol.59 , pp. 284-291
    • Adachi, A.1    Gendelman, H.E.2    Koenig, S.3    Folks, T.4    Willey, R.5    Rabson, A.6    Martin, M.A.7


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