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Volumn 20, Issue 6, 2014, Pages 855-866

Novel RNA structural features of an alternatively splicing group II intron from Clostridium tetani

Author keywords

Bacteria; Ribozyme; Self splicing; Surface layer protein

Indexed keywords

MAGNESIUM; RIBOZYME; SELF SPLICING RIBOSOMAL RNA;

EID: 84901449252     PISSN: 13558382     EISSN: 14699001     Source Type: Journal    
DOI: 10.1261/rna.042440.113     Document Type: Article
Times cited : (3)

References (47)
  • 1
    • 84901452848 scopus 로고    scopus 로고
    • Mobile introns: pathways and proteins. In Mobile DNA II(ed. Craigie R, et al.), pp. 761-783. ASM Press, Washington, DC.
    • Belfort M, Derbyshire V, Parker MM, Cousineau B, Lambowitz AM.2002. Mobile introns: pathways and proteins. In Mobile DNA II(ed. Craigie R, et al.), pp. 761-783. ASM Press, Washington, DC.
    • (2002)
    • Belfort, M.1    Derbyshire, V.2    Parker, M.M.3    Cousineau, B.4    Lambowitz, A.M.5
  • 2
    • 0029561802 scopus 로고
    • A highly efficient procedure for site-specific mutagenesis of full-length plasmids using Vent DNA polymerase
    • Byrappa S, Gavin DK, Gupta KC. 1995. A highly efficient procedure forsite-specific mutagenesis of full-length plasmids using Vent DNApolymerase. Genome Res 5: 404-407. (Pubitemid 26016747)
    • (1995) Genome Research , vol.5 , Issue.4 , pp. 404-407
    • Byrappa, S.1    Gavin, D.K.2    Gupta, K.C.3
  • 4
    • 0028569768 scopus 로고
    • Catalytic site components common toboth splicing steps of a group II intron
    • Chanfreau G, Jacquier A. 1994. Catalytic site components common toboth splicing steps of a group II intron. Science 266: 1383-1387.
    • (1994) Science , vol.266 , pp. 1383-1387
    • Chanfreau, G.1    Jacquier, A.2
  • 5
    • 0030015953 scopus 로고    scopus 로고
    • An RNA conformational change between the two chemical steps of group II self-splicing
    • Chanfreau G, Jacquier A. 1996. An RNA conformational change betweenthe two chemical steps of group II self-splicing. EMBO J 15:3466-3476. (Pubitemid 26231954)
    • (1996) EMBO Journal , vol.15 , Issue.13 , pp. 3466-3476
    • Chanfreau, G.1    Jacquier, A.2
  • 6
    • 0035883706 scopus 로고    scopus 로고
    • Homing endonucleases: Structural and functional insight into the catalysts of intron/intein mobility
    • Chevalier BS, Stoddard BL. 2001. Homing endonucleases: structural andfunctional insight into the catalysts of intron/intein mobility. NucleicAcids Res 29: 3757-3774. (Pubitemid 32910517)
    • (2001) Nucleic Acids Research , vol.29 , Issue.18 , pp. 3757-3774
    • Chevalier, B.S.1    Stoddard, B.L.2
  • 7
    • 0034665039 scopus 로고    scopus 로고
    • A three-dimensional perspectiveon exon binding by a group II self-splicing intron
    • Costa M, Michel F, Westhof E. 2000. A three-dimensional perspectiveon exon binding by a group II self-splicing intron. EMBO J 19:5007-5018.
    • (2000) EMBO J , vol.19 , pp. 5007-5018
    • Costa, M.1    Michel, F.2    Westhof, E.3
  • 8
    • 0037278926 scopus 로고    scopus 로고
    • ORF-less and reverse-transcriptase-encoding group II introns in archaebacteria, with a pattern of homing into related group II intron ORFs
    • DOI 10.1261/rna.2126203
    • Dai L, Zimmerly S. 2003. ORF-less and reverse-transcriptase-encodinggroup II introns in archaebacteria, with a pattern of homing into relatedgroup II intron ORFs. RNA 9: 14-19. (Pubitemid 36206297)
    • (2003) RNA , vol.9 , Issue.1 , pp. 14-19
    • Dai, L.1    Zimmerly, S.2
  • 9
    • 0029927857 scopus 로고    scopus 로고
    • Two competing pathways for self-splicing by group II introns: A quantitative analysis of in vitro reaction rates and products
    • DOI 10.1006/jmbi.1996.0066
    • Daniels DL, Michels WJ Jr, Pyle AM. 1996. Two competing pathways forself-splicing by group II introns: a quantitative analysis of in vitro reactionrates and products. J Mol Biol 256: 31-49. (Pubitemid 26104208)
    • (1996) Journal of Molecular Biology , vol.256 , Issue.1 , pp. 31-49
    • Daniels, D.L.1    Michels Jr., W.J.2    Pyle, A.M.3
  • 10
    • 0027325933 scopus 로고
    • Group II self-splicing introns in bacteria
    • Ferat J-L, Michel F. 1993. Group II self-splicing introns in bacteria.Nature 364: 358-361.
    • (1993) Nature , vol.364 , pp. 358-361
    • Ferat, J.-L.1    Michel, F.2
  • 11
    • 0031015291 scopus 로고    scopus 로고
    • The reverse-transcriptase-like proteins encoded by group II introns in the mitochondrial genome of the brown alga Pylaiella littoralis belong to two different lineages which apparently coevolved with the group II ribosyme lineages
    • DOI 10.1007/PL00006119
    • Fontaine JM, Goux D, Kloareg B, Loiseaux-de Goër S. 1997. The reverse-transcriptase-like proteins encoded by group II introns inthe mitochondrial genome of the brown alga Pylaiella littoralisbelong to two different lineages which apparently coevolved withthe group II ribozyme lineages. J Mol Evol 44: 33-42. (Pubitemid 27030433)
    • (1997) Journal of Molecular Evolution , vol.44 , Issue.1 , pp. 33-42
    • Fontaine, J.-M.1    Goux, D.2    Kloareg, B.3    Loiseaux-De Goer, S.4
  • 12
    • 0025755708 scopus 로고
    • Splice site selection and roleof the lariat in a group II intron
    • Jacquier A, Jacquesson-Breuleux N. 1991. Splice site selection and roleof the lariat in a group II intron. J Mol Biol 219: 415-428.
    • (1991) J Mol Biol , vol.219 , pp. 415-428
    • Jacquier, A.1    Jacquesson-Breuleux, N.2
  • 13
    • 0023643081 scopus 로고
    • Multiple exon-binding sites in class II selfsplicingintrons
    • Jacquier A, Michel F. 1987. Multiple exon-binding sites in class II selfsplicingintrons. Cell 50: 17-29.
    • (1987) Cell , vol.50 , pp. 17-29
    • Jacquier, A.1    Michel, F.2
  • 14
    • 0025344901 scopus 로고
    • Base-pairing interactions involving the 5' and 3'-terminal nucleotides of group II self-splicing introns
    • DOI 10.1016/S0022-2836(05)80206-2
    • Jacquier A, Michel F. 1990. Base-pairing interactions involving the 5′and 3′-terminal nucleotides of group II self-splicing introns. J MolBiol 213: 437-447. (Pubitemid 20194524)
    • (1990) Journal of Molecular Biology , vol.213 , Issue.3 , pp. 437-447
    • Jacquier, A.1    Michel, F.2
  • 15
    • 0023850025 scopus 로고
    • Group IIintron self-splicing Alternative reaction conditions yield novel products
    • Jarrell K, Peebles C, Dietrich R, Romiti S, Perlman P. 1988a. Group IIintron self-splicing. Alternative reaction conditions yield novel products.J Biol Chem 263: 3432-3439.
    • (1988) J Biol Chem , vol.263 , pp. 3432-3439
    • Jarrell, K.1    Peebles, C.2    Dietrich, R.3    Romiti, S.4    Perlman, P.5
  • 16
    • 0024022167 scopus 로고
    • Group II intron domain 5 facilitatesa trans-splicing reaction
    • Jarrell KA, Dietrich R, Perlman P. 1988b. Group II intron domain 5 facilitatesa trans-splicing reaction. Mol Cell Biol 8: 2361-2366.
    • (1988) Mol Cell Biol , vol.8 , pp. 2361-2366
    • Jarrell, K.A.1    Dietrich, R.2    Perlman, P.3
  • 17
    • 0026695012 scopus 로고
    • Group IIintrons deleted for multiple substructures retain self-splicing activity
    • Koch J, Boulanger S, Dib-Hajj S, Hebbar S, Perlman P. 1992. Group IIintrons deleted for multiple substructures retain self-splicing activity.Mol Cell Biol 12: 1950-1958.
    • (1992) Mol Cell Biol , vol.12 , pp. 1950-1958
    • Koch, J.1    Boulanger, S.2    Dib-Hajj, S.3    Hebbar, S.4    Perlman, P.5
  • 18
    • 0027305131 scopus 로고
    • Introns as mobile genetic elements
    • Lambowitz AM, Belfort M. 1993. Introns as mobile genetic elements.Annu Rev Biochem 62: 587-622.
    • (1993) Annu Rev Biochem , vol.62 , pp. 587-622
    • Lambowitz, A.M.1    Belfort, M.2
  • 20
    • 79959288175 scopus 로고    scopus 로고
    • Recurrent insertion of5′-terminal nucleotides and loss of the branchpoint motif in lineagesof group II introns inserted in mitochondrial preribosomal RNAs
    • Li CF, Costa M, Bassi G, Lai YK, Michel F. 2011. Recurrent insertion of5′-terminal nucleotides and loss of the branchpoint motif in lineagesof group II introns inserted in mitochondrial preribosomal RNAs.RNA 17: 1321-1335.
    • (2011) RNA , vol.17 , pp. 1321-1335
    • Li, C.F.1    Costa, M.2    Bassi, G.3    Lai, Y.K.4    Michel, F.5
  • 21
    • 33744817387 scopus 로고    scopus 로고
    • Multiple physical forms of excised group II intron RNAs in wheat mitochondria
    • DOI 10.1093/nar/gkl328
    • Li-Pook-Than J, Bonen L. 2006. Multiple physical forms of excisedgroup II intron RNAs in wheat mitochondria. Nucleic Acids Res34: 2782-2790. (Pubitemid 43985639)
    • (2006) Nucleic Acids Research , vol.34 , Issue.9 , pp. 2782-2790
    • Li-Pook-Than, J.1    Bonen, L.2
  • 22
    • 84896731107 scopus 로고    scopus 로고
    • Alternative splicing of agroup II intron in a surface layer protein gene in Clostridium tetani
    • McNeil BA, Simon DM, Zimmerly S. 2014. Alternative splicing of agroup II intron in a surface layer protein gene in Clostridium tetani.Nucleic Acids Res 42: 1959-1969.
    • (2014) Nucleic Acids Res , vol.42 , pp. 1959-1969
    • McNeil, B.A.1    Simon, D.M.2    Zimmerly, S.3
  • 23
    • 27444447205 scopus 로고    scopus 로고
    • An intron-encoded protein assistsRNA splicing of multiple similar introns of different bacterial genes
    • Meng Q, Wang Y, Liu X-Q. 2005. An intron-encoded protein assistsRNA splicing of multiple similar introns of different bacterial genes.J Biol Chem 280: 35085-35088.
    • (2005) J Biol Chem , vol.280 , pp. 35085-35088
    • Meng, Q.1    Wang, Y.2    Liu, X.-Q.3
  • 24
    • 0029066770 scopus 로고
    • Structure and activities of group II introns
    • Michel F, Ferat J. 1995. Structure and activities of group II introns. AnnuRev Biochem 64: 435-461.
    • (1995) AnnuRev Biochem , vol.64 , pp. 435-461
    • Michel, F.1    Ferat, J.2
  • 25
    • 0023468134 scopus 로고
    • Long-range intron-exon and intron-intron pairings involved in self-splicing of class II catalytic introns
    • Michel F, Jacquier A. 1987. Long-range intron-exon and intron-intronpairings involved in self-splicing of class II catalytic introns. ColdSpring Harb Symp Quant Biol 52: 201-212. (Pubitemid 18262328)
    • (1987) Cold Spring Harbor Symposia on Quantitative Biology , vol.52 , pp. 201-212
    • Michel, F.1    Jacquier, A.2
  • 26
    • 0024428420 scopus 로고
    • Comparative and functional anatomy of group II catalytic introns - A review
    • DOI 10.1016/0378-1119(89)90026-7
    • Michel F, Umesono K, Ozeki H. 1989. Comparative and functionalanatomy of group II catalytic introns - a review. Gene 82: 5-30. (Pubitemid 19248654)
    • (1989) Gene , vol.82 , Issue.1 , pp. 5-30
    • Michel, F.1    Umesono, K.2    Ozeki, H.3
  • 27
    • 0028904152 scopus 로고
    • Conversion of a group II intron into a newmultiple-turnover ribozyme that selectively cleaves oligonucleotides:elucidation of reaction mechanism and structure/function relationships
    • Michels WJJ, Pyle AM. 1995. Conversion of a group II intron into a newmultiple-turnover ribozyme that selectively cleaves oligonucleotides: elucidation of reaction mechanism and structure/function relationships. Biochemistry 34: 2965-2977.
    • (1995) Biochemistry , vol.34 , pp. 2965-2977
    • Wjj, M.1    Pyle, A.M.2
  • 30
    • 1942533455 scopus 로고    scopus 로고
    • Principles of 3′ splice site selection and alternative splicing for an unusual group II intron from Bacillus anthracis
    • DOI 10.1261/rna.5246804
    • Robart AR, Montgomery NK, Smith KL, Zimmerly S. 2004. Principlesof 3′ splice site selection and alternative splicing for an unusualgroup II intron from Bacillus anthracis. RNA 10: 854-862. (Pubitemid 38529748)
    • (2004) RNA , vol.10 , Issue.5 , pp. 854-862
    • Robart, A.R.1    Montgomery, N.K.2    Smith, K.L.3    Zimmerly, S.4
  • 32
    • 0022446227 scopus 로고
    • Self-splicing of group II introns in vitro: Mapping of the branch point and mutational inhibition of lariat formation
    • Schmelzer C, Schweyen RJ. 1986. Self-splicing of group II introns in vitro:mapping of the branch point and mutational inhibition of lariatformation. Cell 46: 557-565. (Pubitemid 16022410)
    • (1986) Cell , vol.46 , Issue.4 , pp. 557-565
    • Schmelzer, C.1    Schweyen, R.J.2
  • 34
    • 70450225451 scopus 로고    scopus 로고
    • A broadscale phylogeneticanalysis of group II intron RNAs and intron-encoded reverse transcriptases
    • Simon DM, Kelchner SA, Zimmerly S. 2009. A broadscale phylogeneticanalysis of group II intron RNAs and intron-encoded reverse transcriptases.Mol Biol Evol 26: 2795-2808.
    • (2009) Mol Biol Evol , vol.26 , pp. 2795-2808
    • Simon, D.M.1    Kelchner, S.A.2    Zimmerly, S.3
  • 35
    • 34247129014 scopus 로고    scopus 로고
    • Group II intron in Bacillus cereus has an unusual 3′ extension and splices 56 nucleotides downstream of the predicted site
    • DOI 10.1093/nar/gkm031
    • Stabell FB, Tourasse NJ, Ravnum S, Kolstø AB. 2007. Group II intronin Bacillus cereus has an unusual 3′ extension and splices 56 nucleotidesdownstream of the predicted site. Nucleic Acids Res 35:1612-1623. (Pubitemid 46592881)
    • (2007) Nucleic Acids Research , vol.35 , Issue.5 , pp. 1612-1623
    • Stabell, F.B.1    Tourasse, N.J.2    Ravnum, S.3    Kolsto, A.-B.4
  • 36
    • 67249161647 scopus 로고    scopus 로고
    • A conserved 3′ extension inunusual group II introns is important for efficient second-step splicing
    • Stabell FB, Tourasse NJ, Kolstø AB. 2009. A conserved 3′ extension inunusual group II introns is important for efficient second-step splicing.Nucleic Acids Res 37: 3202-3214.
    • (2009) Nucleic Acids Res , vol.37 , pp. 3202-3214
    • Stabell, F.B.1    Tourasse, N.J.2    Kolstø, A.B.3
  • 37
    • 0034910710 scopus 로고    scopus 로고
    • Coevolution of group II intronRNA structures with their intron-encoded reverse transcriptases
    • Toor N, Hausner G, Zimmerly S. 2001. Coevolution of group II intronRNA structures with their intron-encoded reverse transcriptases.RNA 7: 1142-1152.
    • (2001) RNA , vol.7 , pp. 1142-1152
    • Toor, N.1    Hausner, G.2    Zimmerly, S.3
  • 38
    • 33845895973 scopus 로고    scopus 로고
    • Self-splicing of agroup IIC intron: 5′ exon recognition and alternative 5′ splicingevents implicate the stem-loop motif of a transcriptional terminator
    • Toor N, Robart AR, Christianson J, Zimmerly S. 2006. Self-splicing of agroup IIC intron: 5′ exon recognition and alternative 5′ splicingevents implicate the stem-loop motif of a transcriptional terminator.Nucleic Acids Res 34: 6461-6471.
    • (2006) Nucleic Acids Res , vol.34 , pp. 6461-6471
    • Toor, N.1    Robart, A.R.2    Christianson, J.3    Zimmerly, S.4
  • 39
    • 41749109563 scopus 로고    scopus 로고
    • Crystal structure of a self-spliced group II intron
    • DOI 10.1126/science.1153803
    • Toor N, Keating KS, Taylor SD, Pyle AM. 2008. Crystal structure of aself-spliced group II intron. Science 320: 77-82. (Pubitemid 351490756)
    • (2008) Science , vol.320 , Issue.5872 , pp. 77-82
    • Toor, N.1    Keating, K.S.2    Taylor, S.D.3    Pyle, A.M.4
  • 40
    • 84872793413 scopus 로고    scopus 로고
    • Comprehensive phylogenetic analysisof bacterial group II intron-encoded ORFs lacking the DNA endonucleasedomain reveals new varieties
    • Toro N, Martínez-Abarca F. 2013. Comprehensive phylogenetic analysisof bacterial group II intron-encoded ORFs lacking the DNA endonucleasedomain reveals new varieties. PLoS One 8: e55102.
    • (2013) PLoS One , vol.8
    • Toro, N.1    Martínez-Abarca, F.2
  • 41
    • 0037121082 scopus 로고    scopus 로고
    • Identification and characterization of bacterial class e group II introns
    • DOI 10.1016/S0378-1119(02)01079-X, PII S037811190201079X
    • Toro N, Molina-Sánchez MD, Fernández-López M. 2002. Identificationand characterization of bacterial class E group II introns. Gene 299:245-250. (Pubitemid 35379846)
    • (2002) Gene , vol.299 , Issue.1-2 , pp. 245-250
    • Toro, N.1    Molina-Sanchez, M.D.2    Fernandez-Lopez, M.3
  • 42
    • 25444466187 scopus 로고    scopus 로고
    • Conjugative plasmidpAW63 brings new insights into the genesis of the Bacillus anthracisvirulence plasmid pXO2 and of the Bacillus thuringiensis plasmidpBT9727
    • Van der Auwera GA, Andrup L, Mahillon J. 2005. Conjugative plasmidpAW63 brings new insights into the genesis of the Bacillus anthracisvirulence plasmid pXO2 and of the Bacillus thuringiensis plasmidpBT9727. BMC Genomics 6: 103.
    • (2005) BMC Genomics , vol.6 , pp. 103
    • Van Der Auwera, G.A.1    Andrup, L.2    Mahillon, J.3
  • 43
    • 0022550426 scopus 로고
    • Excised group II introns in yeast mitochondria are lariats and can be formed by self-splicing in vitro
    • Van der Veen R, Arnberg AC, van der Horst G, Bonen L, Tabak HF,Grivell LA. 1986. Excised group II introns in yeast mitochondriaare lariats and can be formed by self-splicing in vitro. Cell 44:225-234. (Pubitemid 16048208)
    • (1986) Cell , vol.44 , Issue.2 , pp. 225-234
    • Van Der Veen, R.1    Arnberg, A.C.2    Van Der Horst, G.3
  • 44
    • 0023461755 scopus 로고
    • Mutations at the lariat acceptorsite allow self-splicing of a group II intron without lariat formation
    • Van der Veen R, Kwakman J, Grivell L. 1987. Mutations at the lariat acceptorsite allow self-splicing of a group II intron without lariat formation.EMBO J 6: 3827-3831.
    • (1987) EMBO J , vol.6 , pp. 3827-3831
    • Van Der Veen, R.1    Kwakman, J.2    Grivell, L.3
  • 45
    • 0037099679 scopus 로고    scopus 로고
    • Lariat formation and a hydrolytic pathway in plant chloroplast group II intron splicing
    • DOI 10.1093/emboj/cdf359
    • Vogel J, Börner T. 2002. Lariat formation and a hydrolytic pathway inplant chloroplast group II intron splicing. EMBO J 21: 3794-3803. (Pubitemid 34787052)
    • (2002) EMBO Journal , vol.21 , Issue.14 , pp. 3794-3803
    • Vogel, J.1    Borner, T.2
  • 46
    • 0029162089 scopus 로고
    • Group II intronmobility occurs by target DNA-primed reverse transcription
    • Zimmerly S, Guo H, Perlman PS, Lambowltz AM. 1995. Group II intronmobility occurs by target DNA-primed reverse transcription. Cell 82:545-554.
    • (1995) Cell , vol.82 , pp. 545-554
    • Zimmerly, S.1    Guo, H.2    Perlman, P.S.3    Lambowltz, A.M.4
  • 47
    • 0035282874 scopus 로고    scopus 로고
    • Phylogenetic relationships among group II intron ORFs
    • Zimmerly S, Hausner G, Wu X. 2001. Phylogenetic relationships amonggroup II intron ORFs. Nucleic Acids Res 29: 1238-1250. (Pubitemid 32186211)
    • (2001) Nucleic Acids Research , vol.29 , Issue.5 , pp. 1238-1250
    • Zimmerly, S.1    Hausner, G.2    Wu, X.-C.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.