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Volumn 34, Issue 20, 2006, Pages 6015-6022

Differential annotation of tRNA genes with anticodon CAT in bacterial genomes

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL PROTEIN; ISOLEUCINE; METHIONINE; PROTEIN TILS; TRANSFER RNA;

EID: 33845644036     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkl739     Document Type: Article
Times cited : (33)

References (24)
  • 1
    • 0030854739 scopus 로고    scopus 로고
    • tRNAscan-SE: A program for improved detection of transfer RNA genes in genomic sequence
    • Lowe,T.M. and Eddy,S.R. (1997) tRNAscan-SE: A program for improved detection of transfer RNA genes in genomic sequence. Nucleic Acids Res., 25, 955-964.
    • (1997) Nucleic Acids Res. , vol.25 , pp. 955-964
    • Lowe, T.M.1    Eddy, S.R.2
  • 2
    • 33644853072 scopus 로고    scopus 로고
    • TFAM detects co-evolution of tRNA identity rules with lateral transfer of histidyl-tRNA synthetase
    • Ardell,D.H. and Andersson,S.G.E. (2006) TFAM detects co-evolution of tRNA identity rules with lateral transfer of histidyl-tRNA synthetase. Nucleic Acids Res., 34, 893-904.
    • (2006) Nucleic Acids Res. , vol.34 , pp. 893-904
    • Ardell, D.H.1    Andersson, S.G.E.2
  • 3
    • 1842663082 scopus 로고    scopus 로고
    • Enzymatic conversion of cytidine to lysidine in anticodon of bacterial tRNA(lle) - An alternative way of RNA editing
    • Grosjean,H. and Bjork,G.R. (2004) Enzymatic conversion of cytidine to lysidine in anticodon of bacterial tRNA(lle) - an alternative way of RNA editing. Trends Biochem. Sci., 29, 165-168.
    • (2004) Trends Biochem. Sci. , vol.29 , pp. 165-168
    • Grosjean, H.1    Bjork, G.R.2
  • 4
    • 1242309517 scopus 로고    scopus 로고
    • Decoding the genome: A modified view
    • Agris,P.F. (2004) Decoding the genome: A modified view. Nucleic Acids Res., 32, 223-238.
    • (2004) Nucleic Acids Res. , vol.32 , pp. 223-238
    • Agris, P.F.1
  • 6
    • 4544371669 scopus 로고    scopus 로고
    • Determination of the core of a minimal bacterial gene set
    • Gil,R., Silva,F.J., Pereto,J. and Moya,A. (2004) Determination of the core of a minimal bacterial gene set. Microbiol. Mol. Biol. Rev., 68, 518-537.
    • (2004) Microbiol. Mol. Biol. Rev. , vol.68 , pp. 518-537
    • Gil, R.1    Silva, F.J.2    Pereto, J.3    Moya, A.4
  • 7
    • 0036792830 scopus 로고    scopus 로고
    • tRNomics: Analysis of tRNA genes from 50 genomes of Eukarya, Archaea, and Bacteria reveals anticodon-sparing strategies and domain-specific features
    • Marck,C. and Grosjean,H. (2002) tRNomics: Analysis of tRNA genes from 50 genomes of Eukarya, Archaea, and Bacteria reveals anticodon-sparing strategies and domain-specific features. RNA, 8, 1189-1232.
    • (2002) RNA , vol.8 , pp. 1189-1232
    • Marck, C.1    Grosjean, H.2
  • 8
    • 8744310123 scopus 로고    scopus 로고
    • Codon usage bias from tRNA's point of view: Redundancy, specialization, and efficient decoding for translation optimization
    • Rocha,E.P. (2004) Codon usage bias from tRNA's point of view: redundancy, specialization, and efficient decoding for translation optimization. Genome Res., 14, 2279-2286.
    • (2004) Genome Res. , vol.14 , pp. 2279-2286
    • Rocha, E.P.1
  • 9
    • 22544480568 scopus 로고    scopus 로고
    • Molecular mechanism of lysidine synthesis that determines tRNA identity and codon recognition
    • Ikeuchi,Y., Soma,A., Ote,T., Kato,J., Sekine,Y. and Suzuki,T. (2005) Molecular mechanism of lysidine synthesis that determines tRNA identity and codon recognition. Mol. Cell, 19, 235-246.
    • (2005) Mol. Cell , vol.19 , pp. 235-246
    • Ikeuchi, Y.1    Soma, A.2    Ote, T.3    Kato, J.4    Sekine, Y.5    Suzuki, T.6
  • 10
    • 19644389271 scopus 로고    scopus 로고
    • Structural basis for lysidine formation by ATP pyrophosphatase accompanied by a lysine-specific loop and a tRNA-recognition domain
    • Nakanishi,K., Fukai,S., Ikeuchi,Y., Soma,A., Sekine,Y., Suzuki,T. and Nureki,O. (2005) Structural basis for lysidine formation by ATP pyrophosphatase accompanied by a lysine-specific loop and a tRNA-recognition domain. Proc. Natl Acad. Sci. USA, 102, 7487-7492.
    • (2005) Proc. Natl Acad. Sci. USA , vol.102 , pp. 7487-7492
    • Nakanishi, K.1    Fukai, S.2    Ikeuchi, Y.3    Soma, A.4    Sekine, Y.5    Suzuki, T.6    Nureki, O.7
  • 11
    • 0031574072 scopus 로고    scopus 로고
    • The CLUSTAL_X windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools
    • Thompson,J.D., Gibson,T.J., Plewniak,F., Jeanmougin,F. and Higgins,D.G. (1997) The CLUSTAL_X windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res., 25, 4876-4882.
    • (1997) Nucleic Acids Res. , vol.25 , pp. 4876-4882
    • Thompson, J.D.1    Gibson, T.J.2    Plewniak, F.3    Jeanmougin, F.4    Higgins, D.G.5
  • 12
    • 3242810318 scopus 로고    scopus 로고
    • MEGA3: Integrated software for molecular evolutionary genetics analysis and sequence alignment
    • Kumar,S., Tamura,K. and Nei,M. (2004) MEGA3: Integrated software for molecular evolutionary genetics analysis and sequence alignment. Brief. Bioinformatics, 5, 150-163.
    • (2004) Brief. Bioinformatics , vol.5 , pp. 150-163
    • Kumar, S.1    Tamura, K.2    Nei, M.3
  • 13
    • 0023375195 scopus 로고
    • The neighbor-joining method: A new method for reconstructing phylogenetic trees
    • Saitou,N. and Nei,M. (1987) The neighbor-joining method: A new method for reconstructing phylogenetic trees. Mol. Biol. Evol., 4, 406-425.
    • (1987) Mol. Biol. Evol. , vol.4 , pp. 406-425
    • Saitou, N.1    Nei, M.2
  • 14
    • 0023734317 scopus 로고
    • Codon and amino-acid specificities of a transfer-RNA are both converted by a single post-transcriptional modification
    • Muramatsu,T., Nishikawa,K., Nemoto,F, Kuchino,Y., Nishimura,S., Miyazawa,T. and Yokoyama,S. (1988) Codon and amino-acid specificities of a transfer-RNA are both converted by a single post-transcriptional modification. Nature, 336, 179-181.
    • (1988) Nature , vol.336 , pp. 179-181
    • Muramatsu, T.1    Nishikawa, K.2    Nemoto, F.3    Kuchino, Y.4    Nishimura, S.5    Miyazawa, T.6    Yokoyama, S.7
  • 15
    • 0024415902 scopus 로고
    • Codon recognition patterns as deduced from sequences of the complete set of transfer-RNA species in Mycoplasma capricolum - Resemblance to mitochondria
    • Andachi,Y., Yamao,F., Muto,A. and Osawa,S. (1989) Codon recognition patterns as deduced from sequences of the complete set of transfer-RNA species in Mycoplasma capricolum - resemblance to mitochondria. J. Mol. Biol., 209, 37-54.
    • (1989) J. Mol. Biol. , vol.209 , pp. 37-54
    • Andachi, Y.1    Yamao, F.2    Muto, A.3    Osawa, S.4
  • 16
    • 13444288185 scopus 로고    scopus 로고
    • Compilation of tRNA sequences and sequences of tRNA genes
    • Sprinzl,M. and Vassilenko,K.S. (2005) Compilation of tRNA sequences and sequences of tRNA genes. Nucleic Acids Res., 33, D139-D140.
    • (2005) Nucleic Acids Res. , vol.33
    • Sprinzl, M.1    Vassilenko, K.S.2
  • 17
    • 0035500843 scopus 로고    scopus 로고
    • Genome size reduction through multiple events of gene disintegration in Buchnera APS
    • Silva,F.J., Latorre,A. and Moya,A. (2001) Genome size reduction through multiple events of gene disintegration in Buchnera APS. Trends Genet., 17, 615-619
    • (2001) Trends Genet. , vol.17 , pp. 615-619
    • Silva, F.J.1    Latorre, A.2    Moya, A.3
  • 18
    • 6344269329 scopus 로고    scopus 로고
    • The evolutionary fate of nonfunctional DNA in the bacterial endosymbiont Buchnera aphidicola
    • Gomez-Valero,L., Latorre,A. and Silva,F.J. (2004) The evolutionary fate of nonfunctional DNA in the bacterial endosymbiont Buchnera aphidicola. Mol. Biol. Evol., 21, 2172-2181.
    • (2004) Mol. Biol. Evol. , vol.21 , pp. 2172-2181
    • Gomez-Valero, L.1    Latorre, A.2    Silva, F.J.3
  • 19
    • 0028125575 scopus 로고
    • Initiator transfer RNAs
    • RajBhandary,U.L. (1994) Initiator transfer RNAs. J. Bacteriol., 176, 547-552.
    • (1994) J. Bacteriol. , vol.176 , pp. 547-552
    • RajBhandary, U.L.1
  • 21
    • 19544374490 scopus 로고    scopus 로고
    • Genome rearrangement distances and gene order phylogeny in gamma-proteobacteria
    • Belda,E., Moya,A. and Silva,F.J. (2005) Genome rearrangement distances and gene order phylogeny in gamma-proteobacteria. Mol. Biol. Evol., 22, 1456-1467.
    • (2005) Mol. Biol. Evol. , vol.22 , pp. 1456-1467
    • Belda, E.1    Moya, A.2    Silva, F.J.3
  • 22
    • 0345531141 scopus 로고    scopus 로고
    • Roles of 5-substituents of tRNA wobble uridines in the recognition of purine-ending codons
    • Takai,K. and Yokoyama,S. (2003) Roles of 5-substituents of tRNA wobble uridines in the recognition of purine-ending codons. Nucleic Acids Res., 31, 6383-6391.
    • (2003) Nucleic Acids Res. , vol.31 , pp. 6383-6391
    • Takai, K.1    Yokoyama, S.2
  • 23
    • 1642513699 scopus 로고    scopus 로고
    • Driving change: The evolution of alternative genetic codes
    • Santos,M.A.S., Moura,G., Massey,S.E. and Tuite,M.F. (2004) Driving change: The evolution of alternative genetic codes. Trends Genet., 20, 95-102.
    • (2004) Trends Genet. , vol.20 , pp. 95-102
    • Santos, M.A.S.1    Moura, G.2    Massey, S.E.3    Tuite, M.F.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.