메뉴 건너뛰기




Volumn 133, Issue 3, 2003, Pages 263-270

RNA aptamers targeted to domain II of hepatitis C virus IRES that bind to its apical loop region

Author keywords

Aptamer; HCV; In vitro selection; IRES; Loop loop interaction; RNA structure

Indexed keywords

APTAMER; RNA;

EID: 0037368588     PISSN: 0021924X     EISSN: None     Source Type: Journal    
DOI: 10.1093/jb/mvg036     Document Type: Article
Times cited : (59)

References (35)
  • 1
    • 0035803583 scopus 로고    scopus 로고
    • Functional anatomy of siRNAs for mediating efficient RNA: In Drosophila melanogaster embryo lysate
    • Elbashir, S.M., Martinenz, J., Patkaniowska, A., Lendeckel, W., and Tuschl, T. (2001) Functional anatomy of siRNAs for mediating efficient RNA: in Drosophila melanogaster embryo lysate. EMBO J. 20, 6877-6888
    • (2001) EMBO J. , vol.20 , pp. 6877-6888
    • Elbashir, S.M.1    Martinenz, J.2    Patkaniowska, A.3    Lendeckel, W.4    Tuschl, T.5
  • 2
    • 0028239204 scopus 로고
    • Idenfication of the primary site of the human immunodeficiency virus type 1 dimerization in vitro
    • Skripkin, E., Paillart, J.C., Marquet, R., Ehresmann, B., and C., Ehresmann (1994) Idenfication of the primary site of the human immunodeficiency virus type 1 dimerization in vitro. Proc. Natl. Acad. Sci. USA 91, 4945-4949
    • (1994) Proc. Natl. Acad. Sci. USA , vol.91 , pp. 4945-4949
    • Skripkin, E.1    Paillart, J.C.2    Marquet, R.3    Ehresmann, B.4    Ehresmann, C.5
  • 3
    • 0025069836 scopus 로고
    • Complex formed by complementary RNA stem-loops and its stabilization by a protein: Function of CoIE1 Rom protein
    • Eguchi, Y. and Tomizawa, J-I. (1990) Complex formed by complementary RNA stem-loops and its stabilization by a protein: function of CoIE1 Rom protein. Cell 60, 199-209
    • (1990) Cell , vol.60 , pp. 199-209
    • Eguchi, Y.1    Tomizawa, J.-I.2
  • 5
    • 0035947236 scopus 로고    scopus 로고
    • Base-pairing between untranslated regions facilitates translation of uncapped, nonpolyadenylated viral RNA
    • Guo, L., Allen, E., and Miller, W.A. (2001) Base-pairing between untranslated regions facilitates translation of uncapped, nonpolyadenylated viral RNA. Mol. Cell 7, 1103-1109
    • (2001) Mol. Cell , vol.7 , pp. 1103-1109
    • Guo, L.1    Allen, E.2    Miller, W.A.3
  • 6
    • 0030916532 scopus 로고    scopus 로고
    • A viral sequence in the 3′-untranslated region mimics a 5′ cap in facilitating translation of uncapped mRNA
    • Wang, S., Browning, K.S., and Miller, W.A. (1997) A viral sequence in the 3′-untranslated region mimics a 5′ cap in facilitating translation of uncapped mRNA. EMBO J. 16, 4107-4116
    • (1997) EMBO J. , vol.16 , pp. 4107-4116
    • Wang, S.1    Browning, K.S.2    Miller, W.A.3
  • 7
    • 0032980604 scopus 로고    scopus 로고
    • A potential mechanism for selective control of cap-independent translation by a viral RNA sequence in cis and in trans
    • Wang, S., Guo, L., Allen, E.M., and Miller, W.A. (1999) A potential mechanism for selective control of cap-independent translation by a viral RNA sequence in cis and in trans. RNA 5, 728-738
    • (1999) RNA , vol.5 , pp. 728-738
    • Wang, S.1    Guo, L.2    Allen, E.M.3    Miller, W.A.4
  • 9
    • 0026513651 scopus 로고
    • Internal ribosome entry site within hepatitis C virus RNA
    • Tsukiyama-Kohara, K., Iizuka, N., Kohara, M., and Nomoto, A. (1992) Internal ribosome entry site within hepatitis C virus RNA. J. Virol. 66, 1476-1483
    • (1992) J. Virol. , vol.66 , pp. 1476-1483
    • Tsukiyama-Kohara, K.1    Iizuka, N.2    Kohara, M.3    Nomoto, A.4
  • 10
    • 0036545533 scopus 로고    scopus 로고
    • The hepatitis C virus internal ribosome-entry site: A new target for antiviral research
    • Gallego, J. and Varani, G. (2002) The hepatitis C virus internal ribosome-entry site: a new target for antiviral research. Biochemical Society Transactions 30, 140-145
    • (2002) Biochemical Society Transactions , vol.30 , pp. 140-145
    • Gallego, J.1    Varani, G.2
  • 11
    • 0035831269 scopus 로고    scopus 로고
    • Hepatitis C virus IRES RNA-induced changes in the conformation of the 40S ribosomal subunit
    • Spahn, C.M.T., Kieft, J.S., Grassucci, R.A., Penczek, P.A., Zhou, K., Doudna, J.A., and Frank, J. (2001) Hepatitis C virus IRES RNA-induced changes in the conformation of the 40S ribosomal subunit. Science 291, 1959-1962
    • (2001) Science , vol.291 , pp. 1959-1962
    • Spahn, C.M.T.1    Kieft, J.S.2    Grassucci, R.A.3    Penczek, P.A.4    Zhou, K.5    Doudna, J.A.6    Frank, J.7
  • 12
    • 0033673387 scopus 로고    scopus 로고
    • Structures of two RNA domains essential for hepatitis C virus internal ribosome entry site function
    • Lukavsky, P.J., Otto, G.A., Lancaster, A.M., Sarnow, P., and Puglisi, J.D. (2000) Structures of two RNA domains essential for hepatitis C virus internal ribosome entry site function. Nat. Struct. Biol. 7, 1105-1110
    • (2000) Nat. Struct. Biol. , vol.7 , pp. 1105-1110
    • Lukavsky, P.J.1    Otto, G.A.2    Lancaster, A.M.3    Sarnow, P.4    Puglisi, J.D.5
  • 13
    • 0036237981 scopus 로고    scopus 로고
    • Crystal structure of an RNA tertiary domain essential to HCV IRES-mediated translation initiation
    • Kieft, J.S., Zhou, K., Grech, A., Jubin, R., and Doudna, J.A. (2002) Crystal structure of an RNA tertiary domain essential to HCV IRES-mediated translation initiation. Nat. Struct. Biol. 9, 370-374
    • (2002) Nat. Struct. Biol. , vol.9 , pp. 370-374
    • Kieft, J.S.1    Zhou, K.2    Grech, A.3    Jubin, R.4    Doudna, J.A.5
  • 15
    • 0032782434 scopus 로고    scopus 로고
    • Mutational analysis of a conserved tetraloop in the 5′ untranslated region of hepatitis C virus identifies a novel RNA element essential for the internal ribosome entry site function
    • Psaridi, L., Georgopoulou, U., Varaklioti, A., and Mavromara, P. (1999) Mutational analysis of a conserved tetraloop in the 5′ untranslated region of hepatitis C virus identifies a novel RNA element essential for the internal ribosome entry site function. FEBS Lett. 453, 49-53
    • (1999) FEBS Lett. , vol.453 , pp. 49-53
    • Psaridi, L.1    Georgopoulou, U.2    Varaklioti, A.3    Mavromara, P.4
  • 16
    • 0029949695 scopus 로고    scopus 로고
    • Stability of a stem-loop involving the initiator AUG controls the efficiency of internal initiation of translation on hepatitis C virus RNA
    • Honda, M., Brown, E.A., and Lemon, S.M. (1996) Stability of a stem-loop involving the initiator AUG controls the efficiency of internal initiation of translation on hepatitis C virus RNA. RNA 2, 955-968
    • (1996) RNA , vol.2 , pp. 955-968
    • Honda, M.1    Brown, E.A.2    Lemon, S.M.3
  • 17
    • 0035834686 scopus 로고    scopus 로고
    • Mutational analysis of the different bulge regions of hepatitis C virus domain II and their influence on internal ribosome entry site translational ability
    • Odreman-Macchioli, F., Baralle, F.E., and Buratti, E. (2001) Mutational analysis of the different bulge regions of hepatitis C virus domain II and their influence on internal ribosome entry site translational ability. J. Biol. Chem. 276, 41648-41655
    • (2001) J. Biol. Chem. , vol.276 , pp. 41648-41655
    • Odreman-Macchioli, F.1    Baralle, F.E.2    Buratti, E.3
  • 18
    • 0037196387 scopus 로고    scopus 로고
    • Mutational analysis of the apical region of domain II of the HCV IRES
    • Kalliampakou, K.I., Psaridi-Linardaki, L., and Mavromara, P. (2002) Mutational analysis of the apical region of domain II of the HCV IRES. FEBS Lett. 511, 79-84
    • (2002) FEBS Lett. , vol.511 , pp. 79-84
    • Kalliampakou, K.I.1    Psaridi-Linardaki, L.2    Mavromara, P.3
  • 19
    • 0037077562 scopus 로고    scopus 로고
    • NMR study of 100 kDa HCV IRES RNA using segmental isotope labeling
    • Kim, I., Lukavsky, P.J., and Puglisi, J.D. (2002) NMR study of 100 kDa HCV IRES RNA using segmental isotope labeling. J. Am. Chem. Soc. 124, 9338-9339
    • (2002) J. Am. Chem. Soc. , vol.124 , pp. 9338-9339
    • Kim, I.1    Lukavsky, P.J.2    Puglisi, J.D.3
  • 20
    • 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
  • 21
    • 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
  • 22
    • 0032795088 scopus 로고    scopus 로고
    • In vitro selection identifies key determinants for loop-loop interactions: RNA aptamers selective for the TAR RNA element of HIV-1
    • Duconge, F. and Toulme, J.-J. (1999) In vitro selection identifies key determinants for loop-loop interactions: RNA aptamers selective for the TAR RNA element of HIV-1. RNA 5, 1605-1614
    • (1999) RNA , vol.5 , pp. 1605-1614
    • Duconge, F.1    Toulme, J.-J.2
  • 23
    • 0033827659 scopus 로고    scopus 로고
    • Convergence of natural and artificial evolution on an RNA loop-loop interaction: The HIV-1 dimerization initiation site
    • Lodmell, J.S., Ehresmann, C., Ehresmann, B., and Marquet, R. (2000) Convergence of natural and artificial evolution on an RNA loop-loop interaction: the HIV-1 dimerization initiation site. RNA 6, 1267-1276
    • (2000) RNA , vol.6 , pp. 1267-1276
    • Lodmell, J.S.1    Ehresmann, C.2    Ehresmann, B.3    Marquet, R.4
  • 24
    • 0034255243 scopus 로고    scopus 로고
    • RNA aptamers that specifically bind to a 16S ribosomal RNA decoding region construct
    • Tok, J.B.-H., Cho, J., and Rando, R.R. (2000) RNA aptamers that specifically bind to a 16S ribosomal RNA decoding region construct. Nucleic Acids Res. 28, 2902-2910
    • (2000) Nucleic Acids Res. , vol.28 , pp. 2902-2910
    • Tok, J.B.-H.1    Cho, J.2    Rando, R.R.3
  • 25
    • 0037035556 scopus 로고    scopus 로고
    • Apical loop-internal loop interactions: A new RNA-RNA recognition motif indentified through in vitro selection against RNA hairpin of the hepatitis C virus mRNA
    • Aldaz-Carroll, L., Tallet, B., Dausse, E., Yurchenko, L., and Toulme, J.-J. (2002) Apical loop-internal loop interactions: a new RNA-RNA recognition motif indentified through in vitro selection against RNA hairpin of the hepatitis C virus mRNA. Biochemistry 41, 5883-5893
    • (2002) Biochemistry , vol.41 , pp. 5883-5893
    • Aldaz-Carroll, L.1    Tallet, B.2    Dausse, E.3    Yurchenko, L.4    Toulme, J.-J.5
  • 26
    • 0024806949 scopus 로고
    • Computer prediction of RNA structure
    • Zuker, M. (1989) Computer prediction of RNA structure. Methods Enzymol. 180, 202-287
    • (1989) Methods Enzymol. , vol.180 , pp. 202-287
    • Zuker, M.1
  • 27
    • 0342618762 scopus 로고    scopus 로고
    • Kinetics for hybridization of peptide nucleic acids (PNA) with DNA and RNA studied with the BIAcore technique
    • Jensen, K.K., Orum, H., Nielsen, P.E., and Norden, B. (1997) Kinetics for hybridization of peptide nucleic acids (PNA) with DNA and RNA studied with the BIAcore technique. Biochemistry 36, 5072-5077
    • (1997) Biochemistry , vol.36 , pp. 5072-5077
    • Jensen, K.K.1    Orum, H.2    Nielsen, P.E.3    Norden, B.4
  • 28
    • 0035171181 scopus 로고    scopus 로고
    • Scanning of guanine-guanine mismatches in DNA by synthetic ligands using surface plasmon resonance
    • Nakatani, K., Sando, S., and Saito, I. (2001) Scanning of guanine-guanine mismatches in DNA by synthetic ligands using surface plasmon resonance. Nat. Biotechnol. 19, 51-55
    • (2001) Nat. Biotechnol. , vol.19 , pp. 51-55
    • Nakatani, K.1    Sando, S.2    Saito, I.3
  • 29
    • 0034647516 scopus 로고    scopus 로고
    • Is a closing "GA pair" a rule for stable loop-loop RNA complexes?
    • Duconge, F., Di Primo, C., and Toulme, J.-J. (2000) Is a closing "GA pair" a rule for stable loop-loop RNA complexes? J. Biol. Chem. 275, 21287-21294
    • (2000) J. Biol. Chem. , vol.275 , pp. 21287-21294
    • Duconge, F.1    Di Primo, C.2    Toulme, J.-J.3
  • 30
    • 85041131924 scopus 로고
    • Antisense RNA control in bacteria, phage, and plasmids
    • Wagner, E.G. and Simons, R.W. (1994) Antisense RNA control in bacteria, phage, and plasmids. Annu. Rev. Microbiol. 48, 713-742
    • (1994) Annu. Rev. Microbiol. , vol.48 , pp. 713-742
    • Wagner, E.G.1    Simons, R.W.2
  • 31
    • 0037162493 scopus 로고    scopus 로고
    • Loop-loop interaction of HIV-1 TAR RNA with N3′->P5′ deoxyphosphoramidate aptamers inhibits in vitro Tat-mediated transcription
    • Darfeuille, F., Arzumanov, A., Gryaznov, S., Gait, M.J., Di Primo, C., and Toulme, J.-J. (2002) Loop-loop interaction of HIV-1 TAR RNA with N3′->P5′ deoxyphosphoramidate aptamers inhibits in vitro Tat-mediated transcription. Proc. Natl. Acad. Sci. USA 99, 9709-9714
    • (2002) Proc. Natl. Acad. Sci. USA , vol.99 , pp. 9709-9714
    • Darfeuille, F.1    Arzumanov, A.2    Gryaznov, S.3    Gait, M.J.4    Di Primo, C.5    Toulme, J.-J.6
  • 32
    • 0031591383 scopus 로고    scopus 로고
    • The structure of an RNA "kissing" hairpin complex of the HIV TAR hairpin loop and its complement
    • Chang, K.-Y. and Tinoco, I. Jr (1997) The structure of an RNA "kissing" hairpin complex of the HIV TAR hairpin loop and its complement. J. Mol. Biol. 269, 52-66
    • (1997) J. Mol. Biol. , vol.269 , pp. 52-66
    • Chang, K.-Y.1    Tinoco I., Jr.2
  • 33
  • 34
    • 0034192170 scopus 로고    scopus 로고
    • Surface plasmon resonance kinetic studies of the HIV TAR RNA kissing hairpin complex and its stabilization by 2-thiouridine modification
    • Nair, T.M., Myszka, D.G., and Davis, D.R. (2000) Surface plasmon resonance kinetic studies of the HIV TAR RNA kissing hairpin complex and its stabilization by 2-thiouridine modification. Nucleic Acids Res. 28, 1935-1940
    • (2000) Nucleic Acids Res. , vol.28 , pp. 1935-1940
    • Nair, T.M.1    Myszka, D.G.2    Davis, D.R.3
  • 35
    • 0034747214 scopus 로고    scopus 로고
    • Sequences in the 5′ nontranslated region of hepatitis C virus required for RNA replication
    • Friebe, P., Lohmann, V., Krieger, N., and Bartenschlager, R. (2001) Sequences in the 5′ nontranslated region of hepatitis C virus required for RNA replication. J. Virol. 75, 12047-12057
    • (2001) J. Virol. , vol.75 , pp. 12047-12057
    • Friebe, P.1    Lohmann, V.2    Krieger, N.3    Bartenschlager, R.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.