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Volumn 6, Issue , 2005, Pages

Differentiation of regions with atypical oligonucleotide composition in bacterial genomes

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL GENOMES; FUNCTIONAL CLASS; GENE ANNOTATION; GENOME ORGANIZATION; LOCAL PATTERNS; NUCLEOTIDE SEQUENCES; RIBOSOMAL PROTEINS; STATISTICAL PARAMETERS;

EID: 27644545371     PISSN: 14712105     EISSN: 14712105     Source Type: Journal    
DOI: 10.1186/1471-2105-6-251     Document Type: Article
Times cited : (42)

References (28)
  • 2
    • 0002576679 scopus 로고    scopus 로고
    • Identification of horizontally acquired elements in Helicobacter pylori and other prokaryotes using oligonucleotide difference analysis
    • Pride DT, Blaser MJ. Identification of horizontally acquired elements in Helicobacter pylori and other prokaryotes using oligonucleotide difference analysis. Genome Let 2002, 1:2-15.
    • (2002) Genome Let. , vol.1 , pp. 2-15
    • Pride, D.T.1    Blaser, M.J.2
  • 4
    • 0037315735 scopus 로고    scopus 로고
    • Evolutionary implications of microbial genome tetanucleotide frequency biases
    • Pride DT, Meinersmann RJ, Wassenaar TM, Blaser MJ. Evolutionary implications of microbial genome tetanucleotide frequency biases. Genome Res 2003, 13:145-155.
    • (2003) Genome Res. , vol.13 , pp. 145-155
    • Pride, D.T.1    Meinersmann, R.J.2    Wassenaar, T.M.3    Blaser, M.J.4
  • 5
    • 13244253777 scopus 로고    scopus 로고
    • TETRA: A web-service and a stand-alone program for the analysis and comparison of tetranucleotide usage patterns in DNA sequences
    • Teeling H, Waldmann J, Lombardot T, Bauer M, Glöckner FO. TETRA: a web-service and a stand-alone program for the analysis and comparison of tetranucleotide usage patterns in DNA sequences. BMC Bioinformatics 2004, 5:163.
    • (2004) BMC Bioinformatics , vol.5 , pp. 163
    • Teeling, H.1    Waldmann, J.2    Lombardot, T.3    Bauer, M.4    Glöckner, F.O.5
  • 6
    • 13244279471 scopus 로고    scopus 로고
    • Global features of sequences of bacterial chromosomes, plasmids and phages revealed by analysis of oligonucleotide usage patterns
    • Reva ON, Tümmler B. Global features of sequences of bacterial chromosomes, plasmids and phages revealed by analysis of oligonucleotide usage patterns. BMC Bioinformatics 2004, 5:90.
    • (2004) BMC Bioinformatics , vol.5 , pp. 90
    • Reva, O.N.1    Tümmler, B.2
  • 7
    • 0032173634 scopus 로고    scopus 로고
    • Global dinucleotide signatures and analysis of genomic heterogeneity
    • Karlin S. Global dinucleotide signatures and analysis of genomic heterogeneity. Curr Opin Microbiol 1998, 1:598-610.
    • (1998) Curr. Opin. Microbiol. , vol.1 , pp. 598-610
    • Karlin, S.1
  • 8
    • 1842332701 scopus 로고    scopus 로고
    • Compositional biases of bacterial genomes and evolutionary implications
    • Karlin S, Mrazek J, Campbell A. Compositional biases of bacterial genomes and evolutionary implications. J Bacteriol 1997, 179:3899-3913.
    • (1997) J. Bacteriol. , vol.179 , pp. 3899-3913
    • Karlin, S.1    Mrazek, J.2    Campbell, A.3
  • 9
    • 23744452722 scopus 로고    scopus 로고
    • Four basic symmetry types in the 7-cluster structure of microbial genomic sequences
    • Gorban A. N., Popova T. G., Zinovyev A. Y. Four basic symmetry types in the 7-cluster structure of microbial genomic sequences. In Silico Biol. 2005, 5:0025.
    • (2005) Silico Biol. , vol.5 , pp. 0025
    • Gorban, A.N.1    Popova, T.G.2    Zinovyev, A.Y.3
  • 10
    • 10044246531 scopus 로고    scopus 로고
    • Comparative genomics of Pseudomonas aeruginosa PAO1 and Pseudomonas putida KT2440: Orthologs, codon usage, REP elements and oligonucleotide motif signatures
    • Weinel C, Ussery DW, Ohlsson H, Sicheritz-Ponten T, Kiewitz C, Tümmler B. Comparative genomics of Pseudomonas aeruginosa PAO1 and Pseudomonas putida KT2440: orthologs, codon usage, REP elements and oligonucleotide motif signatures. Genome Letters 2002, 1: 175-187.
    • (2002) Genome Letters , vol.1 , pp. 175-187
    • Weinel, C.1    Ussery, D.W.2    Ohlsson, H.3    Sicheritz-Ponten, T.4    Kiewitz, C.5    Tümmler, B.6
  • 11
    • 0036937356 scopus 로고    scopus 로고
    • Global features of the Pseudomonas putida KT2440 genome sequence
    • Weinel C, Nelson KE, Tümmler B. Global features of the Pseudomonas putida KT2440 genome sequence. Environ Microbiol 2002, 4:809-818.
    • (2002) Environ. Microbiol. , vol.4 , pp. 809-818
    • Weinel, C.1    Nelson, K.E.2    Tümmler, B.3
  • 12
    • 0035891641 scopus 로고    scopus 로고
    • General method of rapid Smith/Birnstiel mapping adds for gap closure in shotgun microbial genome sequencing projects: Application to Pseudomonas putida KT2440
    • Weinel C, Tümmler B, Hilbert H, Nelson KE, Kiewitz C. General method of rapid Smith/Birnstiel mapping adds for gap closure in shotgun microbial genome sequencing projects: application to Pseudomonas putida KT2440. Nucleic Acids Res. 2001, 29:E110.
    • (2001) Nucleic Acids Res. , vol.29
    • Weinel, C.1    Tümmler, B.2    Hilbert, H.3    Nelson, K.E.4    Kiewitz, C.5
  • 13
    • 0242391986 scopus 로고    scopus 로고
    • Codon adaptation index as a measure of dominanting codon bias
    • Carbone A., Zinovyev A., Képès. Codon adaptation index as a measure of dominanting codon bias. Bioinformatics 2003, 19: 2005-2015.
    • (2003) Bioinformatics , vol.19 , pp. 2005-2015
    • Carbone, A.1    Zinovyev, A.2    Képès3
  • 14
    • 0011345871 scopus 로고    scopus 로고
    • Genome codon index of Pseudomonas aeruginosa: A codon index that utilizes whole genome sequence data
    • Kiewitz C, Weinel C, Tümmler B. Genome codon index of Pseudomonas aeruginosa: a codon index that utilizes whole genome sequence data. Genome Letters 2002, 1: 61-70.
    • (2002) Genome Letters , vol.1 , pp. 61-70
    • Kiewitz, C.1    Weinel, C.2    Tümmler, B.3
  • 15
    • 0033758756 scopus 로고    scopus 로고
    • Pathogenicity islands and the evolution of microbes
    • Hacker J, Kaper JB. Pathogenicity islands and the evolution of microbes. Annu Rev Microbiol 2000, 54:641-679.
    • (2000) Annu. Rev. Microbiol. , vol.54 , pp. 641-679
    • Hacker, J.1    Kaper, J.B.2
  • 16
    • 0038504021 scopus 로고    scopus 로고
    • Genomic islands and the evolution of catabolic pathways in bacteria
    • van der Meer JR, Sentchilo V. Genomic islands and the evolution of catabolic pathways in bacteria. Curr Opin Biotechnol 2003, 14:248-254.
    • (2003) Curr. Opin. Biotechnol. , vol.14 , pp. 248-254
    • van der Meer, J.R.1    Sentchilo, V.2
  • 17
    • 0031896498 scopus 로고    scopus 로고
    • The ars operon in the skin element of Bacillus subtilis confers resistance to arsenate and arsenite
    • Sato T, Kobayashi Y. The ars operon in the skin element of Bacillus subtilis confers resistance to arsenate and arsenite. J Bacteriol 1998, 180:1655-1661.
    • (1998) J. Bacteriol. , vol.180 , pp. 1655-1661
    • Sato, T.1    Kobayashi, Y.2
  • 22
    • 0034644159 scopus 로고    scopus 로고
    • The genome sequence of the plant pathogen Xylella fastidiosa. The Xylella fastidiosa Consortium of the Organization for Nucleotide Sequencing and Analysis
    • Simpson AJ, Reinach FC, Arruda P, Abreu FA, Acencio M, Alvarenga R, Alves LM, Araya JE, Baia GS, Baptista CS, et al. The genome sequence of the plant pathogen Xylella fastidiosa. The Xylella fastidiosa Consortium of the Organization for Nucleotide Sequencing and Analysis. Nature 2000 406:151-157.
    • (2000) Nature , vol.406 , pp. 151-157
    • Simpson, A.J.1    Reinach, F.C.2    Arruda, P.3    Abreu, F.A.4    Acencio, M.5    Alvarenga, R.6    Alves, L.M.7    Araya, J.E.8    Baia, G.S.9    Baptista, C.S.10
  • 25
    • 0030994798 scopus 로고    scopus 로고
    • Amelioration of bacterial genomes: Rates of change and exchange
    • Lawrence JG, Ochman H. Amelioration of bacterial genomes: rates of change and exchange. J Mol Evol 1997, 44:383-397.
    • (1997) J. Mol. Evol. , vol.44 , pp. 383-397
    • Lawrence, J.G.1    Ochman, H.2
  • 26
    • 0347285389 scopus 로고    scopus 로고
    • Sequence analysis of the mobile genome island pKLC102 of Pseudomonas aeruginosa C
    • Klockgether J, Reva O, Larbig K, Tümmler B. Sequence analysis of the mobile genome island pKLC102 of Pseudomonas aeruginosa C. J Bacteriol 2004, 186:518-534.
    • (2004) J. Bacteriol. , vol.186 , pp. 518-534
    • Klockgether, J.1    Reva, O.2    Larbig, K.3    Tümmler, B.4
  • 27
    • 84885685475 scopus 로고    scopus 로고
    • NCBI Genome Sequence Database
    • NCBI Genome Sequence Database [http://www.ncbi.nlm.nih.gov/genomes/MICROBES/Complete.html]
  • 28
    • 84874665419 scopus 로고    scopus 로고
    • The Python home site
    • The Python home site [http://www.python.org/]


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.