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Volumn 12, Issue 3, 2006, Pages 353-359

Frequency of RNA-RNA interaction in a model of the RNA World

Author keywords

Fluctuation analysis; Non Watson Crick binding; RNA evolution; RNA World; SELEX

Indexed keywords

RIBONUCLEASE; RNA;

EID: 33344468482     PISSN: 13558382     EISSN: None     Source Type: Journal    
DOI: 10.1261/rna.2204506     Document Type: Article
Times cited : (8)

References (38)
  • 1
    • 6944225455 scopus 로고    scopus 로고
    • Understanding nucleic acids through synthetic chemistry
    • Benner, S.A. 2004. Understanding nucleic acids through synthetic chemistry. Acc. Chem. Res. 37: 784-797.
    • (2004) Acc. Chem. Res. , vol.37 , pp. 784-797
    • Benner, S.A.1
  • 2
    • 0031686486 scopus 로고    scopus 로고
    • Recombination, RNA evolution, and bifunctional RNA molecules isolated through chimeric SELEX
    • Burke, D.H. and Willis, J.H. 1998. Recombination, RNA evolution, and bifunctional RNA molecules isolated through chimeric SELEX. RNA 4: 1165-1175.
    • (1998) RNA , vol.4 , pp. 1165-1175
    • Burke, D.H.1    Willis, J.H.2
  • 3
    • 1942489258 scopus 로고    scopus 로고
    • Informational complexity and functional activity of RNA structures
    • Carothers, J.M., Oestreich, J.C., Davis, J.H., and Szostak, J.W. 2004. Informational complexity and functional activity of RNA structures. J. Am. Chem. Soc. 126: 5130-5137.
    • (2004) J. Am. Chem. Soc. , vol.126 , pp. 5130-5137
    • Carothers, J.M.1    Oestreich, J.C.2    Davis, J.H.3    Szostak, J.W.4
  • 4
    • 0032473358 scopus 로고    scopus 로고
    • Comparative photo-crosslinking analysis of the tertiary structures of Escherichia coli and Bacillus subtilis RNase P RNAs
    • Chen, J-L., Nolan, J.M., Harris, M.E., and Pace, N.R. 1998. Comparative photo-crosslinking analysis of the tertiary structures of Escherichia coli and Bacillus subtilis RNase P RNAs. EMBO J. 17: 1414-1528.
    • (1998) EMBO J. , vol.17 , pp. 1414-1528
    • Chen, J.-L.1    Nolan, J.M.2    Harris, M.E.3    Pace, N.R.4
  • 5
    • 0030975364 scopus 로고    scopus 로고
    • Nonhomologous RNA recombination in a cell-free system: Evidence for a transesterification mechanism guided by secondary structure
    • Chetverin, A.B., Chetverina, H.V., Demidenko, A.A., and Ugarov, V.I. 1997. Nonhomologous RNA recombination in a cell-free system: Evidence for a transesterification mechanism guided by secondary structure. Cell 88: 503-513.
    • (1997) Cell , vol.88 , pp. 503-513
    • Chetverin, A.B.1    Chetverina, H.V.2    Demidenko, A.A.3    Ugarov, V.I.4
  • 7
    • 0030959348 scopus 로고    scopus 로고
    • Rules for RNA recognition of GNRA tetraloops deduced by in vitro selection: Comparison with in vivo evolution
    • Costa, M. and Michel, F. 1997. Rules for RNA recognition of GNRA tetraloops deduced by in vitro selection: Comparison with in vivo evolution. EMBO J. 16: 3289-3302.
    • (1997) EMBO J. , vol.16 , pp. 3289-3302
    • Costa, M.1    Michel, F.2
  • 8
    • 0026536701 scopus 로고
    • Contributions of phylogenetically variable structural elements to the function of the ribozyme ribonuclease P
    • Darr, S.C., Zito, K., Smith, D., and Pace, N.R. 1992. Contributions of phylogenetically variable structural elements to the function of the ribozyme ribonuclease P. Biochemistry 31: 328-333.
    • (1992) Biochemistry , vol.31 , pp. 328-333
    • Darr, S.C.1    Zito, K.2    Smith, D.3    Pace, N.R.4
  • 9
    • 0025074907 scopus 로고
    • In vitro selection of RNA molecules that bind specific ligands
    • Ellington, A.D. and Szostak, J.W. 1990. In vitro selection of RNA molecules that bind specific ligands. Nature 346: 818-822.
    • (1990) Nature , vol.346 , pp. 818-822
    • Ellington, A.D.1    Szostak, J.W.2
  • 10
    • 0004986839 scopus 로고
    • Molecular size distribution in linear condensation polymers
    • Flory, P.J. 1936. Molecular size distribution in linear condensation polymers. J. Am. Chem. Soc. 58: 1877-1885.
    • (1936) J. Am. Chem. Soc. , vol.58 , pp. 1877-1885
    • Flory, P.J.1
  • 11
    • 0003604405 scopus 로고    scopus 로고
    • Gesteland, R.F., Cech, T.R., and Atkins, J.F., eds. Cold Spring Harbor Press, Cold Spring Harbor, NY
    • Gesteland, R.F., Cech, T.R., and Atkins, J.F., eds. 1999. The RNA World. 2nd ed. Cold Spring Harbor Press, Cold Spring Harbor, NY.
    • (1999) The RNA World. 2nd Ed.
  • 12
    • 21844467243 scopus 로고    scopus 로고
    • In vitro RNA pools are not structurally diverse: A computational analysis
    • Gevertz, J., Gan, H.K., and Schlick, T. 2005. In vitro RNA pools are not structurally diverse: A computational analysis. RNA 11: 853-863.
    • (2005) RNA , vol.11 , pp. 853-863
    • Gevertz, J.1    Gan, H.K.2    Schlick, T.3
  • 13
    • 77956918156 scopus 로고
    • Rapid reactions and transient states
    • ed. P.D. Boyer, Academic Press, New York
    • Hammes, G.G. and Schimmel, P.R. 1970. Rapid reactions and transient states. In The Enzymes, 3rd ed., v. II. (ed. P.D. Boyer), pp. 67-114. Academic Press, New York.
    • (1970) The Enzymes, 3rd Ed. , vol.2 , pp. 67-114
    • Hammes, G.G.1    Schimmel, P.R.2
  • 14
    • 0025085590 scopus 로고
    • Catalysis of RNA cleavage by the Tetrahymena thermophila ribozyme. 1. Kinetic description of the reaction of an RNA substrate complementary to the active site
    • Herschlag, D. and Cech, T.R. 1990. Catalysis of RNA cleavage by the Tetrahymena thermophila ribozyme. 1. Kinetic description of the reaction of an RNA substrate complementary to the active site. Biochemistry 29: 10159-10171.
    • (1990) Biochemistry , vol.29 , pp. 10159-10171
    • Herschlag, D.1    Cech, T.R.2
  • 15
    • 0038040606 scopus 로고    scopus 로고
    • Synthesis of 35-40 mers of RNA oligomers from unblocked monomers. A simple approach to the RNA World
    • Huang, W. and Ferris, J.P. 2003. Synthesis of 35-40 mers of RNA oligomers from unblocked monomers. A simple approach to the RNA World. Chem. Commun. 2003: 1458-1459.
    • (2003) Chem. Commun. , vol.2003 , pp. 1458-1459
    • Huang, W.1    Ferris, J.P.2
  • 16
    • 0033118274 scopus 로고    scopus 로고
    • Trans-activation of the Tetrahymena group I intron ribozyme via a non-native RNA-RNA interaction
    • Ikawa, Y., Shiraishi, H., and Inoue, T. 1999. Trans-activation of the Tetrahymena group I intron ribozyme via a non-native RNA-RNA interaction. Nucleic Acids Res. 27: 1650-1655.
    • (1999) Nucleic Acids Res. , vol.27 , pp. 1650-1655
    • Ikawa, Y.1    Shiraishi, H.2    Inoue, T.3
  • 19
    • 0037319334 scopus 로고    scopus 로고
    • Finding specific RNA motifs: Function in a zeptomole world?
    • Knight, R. and Yarus, M. 2003. Finding specific RNA motifs: Function in a zeptomole world? RNA 9: 218-230.
    • (2003) RNA , vol.9 , pp. 218-230
    • Knight, R.1    Yarus, M.2
  • 21
    • 0027414469 scopus 로고
    • Probability model for molecular recognition in biological receptor repertoires: Significance to the olfactory system
    • Lancet, D., Sadovsky, E., and Seidemann, E. 1990. Probability model for molecular recognition in biological receptor repertoires: Significance to the olfactory system. Proc. Natl. Acad. Sci. 90: 3715-3719.
    • (1990) Proc. Natl. Acad. Sci. , vol.90 , pp. 3715-3719
    • Lancet, D.1    Sadovsky, E.2    Seidemann, E.3
  • 22
    • 0042347704 scopus 로고    scopus 로고
    • Processivity of ribozyme-catalyzed RNA polymerization
    • Lawrence, M.S. and Bartel, D.P. 2003. Processivity of ribozyme-catalyzed RNA polymerization. Biochemistry 42: 8748-8755.
    • (2003) Biochemistry , vol.42 , pp. 8748-8755
    • Lawrence, M.S.1    Bartel, D.P.2
  • 24
    • 0001641514 scopus 로고
    • Mutations of bacteria from virus sensitivity to virus resistance
    • Luria, S.E., and Delbrück, M. 1943. Mutations of bacteria from virus sensitivity to virus resistance. Genetics 28: 491-511.
    • (1943) Genetics , vol.28 , pp. 491-511
    • Luria, S.E.1    Delbrück, M.2
  • 25
    • 0032546728 scopus 로고    scopus 로고
    • Derivation of the three-dimensional architecture of bacterial ribonuclease P RNAs from comparative sequence analysis
    • Massire, C., Jaeger, L., and Westhof, E. 1998. Derivation of the three-dimensional architecture of bacterial ribonuclease P RNAs from comparative sequence analysis. J. Mol. Biol. 279: 773-793.
    • (1998) J. Mol. Biol. , vol.279 , pp. 773-793
    • Massire, C.1    Jaeger, L.2    Westhof, E.3
  • 26
    • 1942533453 scopus 로고    scopus 로고
    • Folding of the natural hammerhead ribozyme is enhanced by interaction of auxiliary elements
    • Penedo, J.C., Wilson, T.J., Jayasena, S.D., Khvorova, A., and Lilley, D.M.J. 2004. Folding of the natural hammerhead ribozyme is enhanced by interaction of auxiliary elements. RNA 10: 880-888.
    • (2004) RNA , vol.10 , pp. 880-888
    • Penedo, J.C.1    Wilson, T.J.2    Jayasena, S.D.3    Khvorova, A.4    Lilley, D.M.J.5
  • 27
    • 0348136386 scopus 로고    scopus 로고
    • Generalized RNA-directed recombination of RNA
    • Riley, C.A. and Lehman, N. 2003. Generalized RNA-directed recombination of RNA. Chem. Biol. 10: 1233-1243.
    • (2003) Chem. Biol. , vol.10 , pp. 1233-1243
    • Riley, C.A.1    Lehman, N.2
  • 28
    • 0031259915 scopus 로고    scopus 로고
    • Accessing rare activities from random RNA sequences: The importance of the length of molecules in the starting pool
    • Sabeti, P.C., Unrau, P.J., and Bartel, D.P. 1997. Accessing rare activities from random RNA sequences: The importance of the length of molecules in the starting pool. Chem. Biol. 4: 767-774.
    • (1997) Chem. Biol. , vol.4 , pp. 767-774
    • Sabeti, P.C.1    Unrau, P.J.2    Bartel, D.P.3
  • 29
    • 0035498871 scopus 로고    scopus 로고
    • In vitro evolution suggests multiple origins for the hammerhead ribozyme
    • Salehi-Ashtiani, K. and Szostak, J.W. 2001. In vitro evolution suggests multiple origins for the hammerhead ribozyme. Nature 414: 82-84.
    • (2001) Nature , vol.414 , pp. 82-84
    • Salehi-Ashtiani, K.1    Szostak, J.W.2
  • 30
    • 0033621214 scopus 로고    scopus 로고
    • Ribozymes - Why so many, why so few?
    • Schmidt, F.J. 1999. Ribozymes - why so many, why so few? Mol. Cells 9: 459-463.
    • (1999) Mol. Cells , vol.9 , pp. 459-463
    • Schmidt, F.J.1
  • 31
    • 0023042012 scopus 로고
    • Information content of binding sites on nucleotide sequences
    • Schneider, T.D., Stormo, G.D., Gold, L., and Ehrenfeucht, A.I. 1986. Information content of binding sites on nucleotide sequences. J. Mol. Biol. 188: 415-431.
    • (1986) J. Mol. Biol. , vol.188 , pp. 415-431
    • Schneider, T.D.1    Stormo, G.D.2    Gold, L.3    Ehrenfeucht, A.I.4
  • 32
    • 0032103924 scopus 로고    scopus 로고
    • Selection and characterization of RNAs that relieve transcriptional interference in Escherichia coli
    • Soukup, G.A. and Maher III, L.J. 1998. Selection and characterization of RNAs that relieve transcriptional interference in Escherichia coli. Nucleic Acids Res. 26: 2715-2722.
    • (1998) Nucleic Acids Res. , vol.26 , pp. 2715-2722
    • Soukup, G.A.1    Maher III, L.J.2
  • 33
    • 0037665961 scopus 로고    scopus 로고
    • Functional information: Molecular messages
    • Szostak, J.W. 2003. Functional information: Molecular messages. Nature 423: 689.
    • (2003) Nature , vol.423 , pp. 689
    • Szostak, J.W.1
  • 34
    • 0034705119 scopus 로고    scopus 로고
    • Structural diversity of self-cleaving ribozymes
    • Tang, J. and Breaker, R.R. 2000. Structural diversity of self-cleaving ribozymes. Proc. Natl Acad. Sci. 97: 5784-5789.
    • (2000) Proc. Natl. Acad. Sci. , vol.97 , pp. 5784-5789
    • Tang, J.1    Breaker, R.R.2
  • 36
    • 0025194307 scopus 로고
    • Systematic evolution of ligands by exponential enrichment: RNA ligands to bacteriophage T4 DNA polymerase
    • Tuerk, C. and Gold, L. 1990. Systematic evolution of ligands by exponential enrichment: RNA ligands to bacteriophage T4 DNA polymerase. Science 249: 505-510.
    • (1990) Science , vol.249 , pp. 505-510
    • Tuerk, C.1    Gold, L.2
  • 37
    • 6044241907 scopus 로고    scopus 로고
    • Evolution of RNA architecture
    • Westhof, E. and Massire, C. 2004. Evolution of RNA architecture. Science 305: 62-63.
    • (2004) Science , vol.305 , pp. 62-63
    • Westhof, E.1    Massire, C.2
  • 38
    • 0042121256 scopus 로고    scopus 로고
    • Mfold Web server for nucleic acid folding and hybridization prediction
    • Zuker, M. 2003. Mfold Web server for nucleic acid folding and hybridization prediction. Nucleic Acids Res. 31: 3406-3415.
    • (2003) Nucleic Acids Res. , vol.31 , pp. 3406-3415
    • Zuker, M.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.