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Volumn 6, Issue , 2005, Pages

An acquisition account of genomic islands based on genome signature comparisons

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL DNA; CIRCULAR DNA;

EID: 28344433019     PISSN: 14712164     EISSN: 14712164     Source Type: Journal    
DOI: 10.1186/1471-2164-6-163     Document Type: Article
Times cited : (31)

References (30)
  • 1
    • 0034780910 scopus 로고    scopus 로고
    • Horizontal gene transfer in prokaryotes: Quantification and classification
    • Koonin EV, Makarova KS, Aravind L: Horizontal gene transfer in prokaryotes: quantification and classification. Annu Rev Microbiol 2001, 55:709-742.
    • (2001) Annu. Rev. Microbiol. , vol.55 , pp. 709-742
    • Koonin, E.V.1    Makarova, K.S.2    Aravind, L.3
  • 2
    • 3042849253 scopus 로고    scopus 로고
    • Biased biological functions of horizontally transferred genes in prokaryotic genomes
    • Nakamura Y, Itoh T, Matsuda H, Gojobori T: Biased biological functions of horizontally transferred genes in prokaryotic genomes. Nat Genet 2004, 36(7):760-766.
    • (2004) Nat. Genet. , vol.36 , Issue.7 , pp. 760-766
    • Nakamura, Y.1    Itoh, T.2    Matsuda, H.3    Gojobori, T.4
  • 3
    • 0347756648 scopus 로고    scopus 로고
    • Islander: A database of integrative islands in prokaryotic genomes, the associated integrates and their DNA site specificities
    • Database Issue
    • Mantri Y, Williams KP: Islander: a database of integrative islands in prokaryotic genomes, the associated integrases and their DNA site specificities. Nucleic Acids Res 2004, 32 Database issue:D55-58.
    • (2004) Nucleic Acids Res. , vol.32
    • Mantri, Y.1    Williams, K.P.2
  • 4
  • 5
    • 0033616714 scopus 로고    scopus 로고
    • Horizontal gene transfer among genomes: The complexity hypothesis
    • Jain R, Rivera MC, Lake JA: Horizontal gene transfer among genomes: the complexity hypothesis. Proc Natl Acad Sci U S A 1999, 96(7):3801-3806.
    • (1999) Proc. Natl. Acad. Sci. U. S. A. , vol.96 , Issue.7 , pp. 3801-3806
    • Jain, R.1    Rivera, M.C.2    Lake, J.A.3
  • 6
    • 0028069540 scopus 로고
    • Excision of large DNA regions termed pathogenicity islands from tRNA-specific loci in the chromosome of an Escherichia coil wild-type pathogen
    • Blum G, Ott M, Lischewski A, Ritter A, Imrich H, Tschape H, Hacker J: Excision of large DNA regions termed pathogenicity islands from tRNA-specific loci in the chromosome of an Escherichia coil wild-type pathogen. Infect Immun 1994, 62(2):606-614.
    • (1994) Infect. Immun. , vol.62 , Issue.2 , pp. 606-614
    • Blum, G.1    Ott, M.2    Lischewski, A.3    Ritter, A.4    Imrich, H.5    Tschape, H.6    Hacker, J.7
  • 7
    • 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
  • 8
    • 0035399931 scopus 로고    scopus 로고
    • Detecting anomalous gene clusters and pathogenicity islands in diverse bacterial genomes
    • Karlin S: Detecting anomalous gene clusters and pathogenicity islands in diverse bacterial genomes. Trends Microbiol 2001, 9(7):335-343.
    • (2001) Trends Microbiol. , vol.9 , Issue.7 , pp. 335-343
    • Karlin, S.1
  • 9
    • 0037250391 scopus 로고    scopus 로고
    • HGT-DB: A database of putative horizontally transferred genes in prokaryotic complete genomes
    • Garcia-Vallve S, Guzman E, Montero MA, Romeu A: HGT-DB: a database of putative horizontally transferred genes in prokaryotic complete genomes. Nucleic Acids Res 2003, 31(1):187-189.
    • (2003) Nucleic Acids Res. , vol.31 , Issue.1 , pp. 187-189
    • Garcia-Vallve, S.1    Guzman, E.2    Montero, M.A.3    Romeu, A.4
  • 10
    • 21444456620 scopus 로고    scopus 로고
    • {delta}{rho}-Web, an online tool assess composition similarity of individual nucleic acid sequences
    • van Passel MW, Luyf AC, van Kampen AH, Bart A, van der Ende A: {delta}{rho}-Web, an online tool to assess composition similarity of individual nucleic acid sequences. Bioinformatics 2005, 21(13):3053-3055.
    • (2005) Bioinformatics , vol.21 , Issue.13 , pp. 3053-3055
    • van Passel, M.W.1    Luyf, A.C.2    van Kampen, A.H.3    Bart, A.4    van der Ende, A.5
  • 11
    • 28344448947 scopus 로고    scopus 로고
    • The delta-rho-web and Compare∩lands tools
    • The delta-rho-web and Compare∩lands tools [http://deltarho.amc.uva.nl/]
  • 12
    • 0034978233 scopus 로고    scopus 로고
    • Pathogenicity islands: The tip of the iceberg
    • Hentschel U, Hacker J: Pathogenicity islands: the tip of the iceberg. Microbes Infect 2001, 3(7):545-548.
    • (2001) Microbes Infect. , vol.3 , Issue.7 , pp. 545-548
    • Hentschel, U.1    Hacker, J.2
  • 13
    • 0345237922 scopus 로고    scopus 로고
    • IslandPath: Aiding detection of genomic islands in prokaryotes
    • Hsiao W, Wan I, Jones SJ, Brinkman FS: IslandPath: aiding detection of genomic islands in prokaryotes. Bioinformatics 2003, 19(3):418-420.
    • (2003) Bioinformatics , vol.19 , Issue.3 , pp. 418-420
    • Hsiao, W.1    Wan, I.2    Jones, S.J.3    Brinkman, F.S.4
  • 14
    • 4344647970 scopus 로고    scopus 로고
    • Pervasive properties of the genomic signature
    • Jernigan RW, Baran RH: Pervasive properties of the genomic signature. BMC Genomics 2002, 3(1):20.
    • (2002) BMC Genomics , vol.3 , Issue.1 , pp. 20
    • Jernigan, R.W.1    Baran, R.H.2
  • 16
    • 0034887748 scopus 로고    scopus 로고
    • Capturing whole-genome characteristics in short sequences using a naive Bayesian classifier
    • Sandberg R, Winberg G, Branden CI, Kaske A, Emberg I, Coster J: Capturing whole-genome characteristics in short sequences using a naive Bayesian classifier. Genome Res 2001, 11(8):1404-1409.
    • (2001) Genome Res. , vol.11 , Issue.8 , pp. 1404-1409
    • Sandberg, R.1    Winberg, G.2    Branden, C.I.3    Kaske, A.4    Emberg, I.5    Coster, J.6
  • 17
    • 0037315735 scopus 로고    scopus 로고
    • Evolutionary implications of microbial genome tetranucleotide frequency biases
    • Pride DT, Meinersmann RJ, Wassenaar TM, Blaser MJ: Evolutionary implications of microbial genome tetranucleotide frequency biases. Genome Res 2003,13(2):145-158.
    • (2003) Genome Res. , vol.13 , Issue.2 , pp. 145-158
    • Pride, D.T.1    Meinersmann, R.J.2    Wassenaar, T.M.3    Blaser, M.J.4
  • 18
    • 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(4):383-397.
    • (1997) J. Mol. Evol. , vol.44 , Issue.4 , pp. 383-397
    • Lawrence, J.G.1    Ochman, H.2
  • 19
    • 0034040329 scopus 로고    scopus 로고
    • Frequent interspecific genetic exchange between commensal Neisseriae and Neisseria meningitidis
    • Linz B, Schenker M, Zhu P, Achtman M: Frequent interspecific genetic exchange between commensal Neisseriae and Neisseria meningitidis. Mol Microbiol 2000, 36(5):1049-1058.
    • (2000) Mol. Microbiol. , vol.36 , Issue.5 , pp. 1049-1058
    • Linz, B.1    Schenker, M.2    Zhu, P.3    Achtman, M.4
  • 20
    • 11044226569 scopus 로고    scopus 로고
    • The Vibrio seventh pandemic island-II is a 26.9 kb genomic island present in Vibrio cholerae EI Tor and 0139 serogroup isolates that shows homology to a 43.4 kb genomic island in V. vulnificus
    • O'Shea YA, Finnan S, Reen FJ, Morrissey JP, O'Gara F, Boyd EF: The Vibrio seventh pandemic island-II is a 26.9 kb genomic island present in Vibrio cholerae EI Tor and 0139 serogroup isolates that shows homology to a 43.4 kb genomic island in V. vulnificus. Microbiology 2004, 150(Pt 12):4053-4063.
    • (2004) Microbiology , vol.150 , Issue.PART 12 , pp. 4053-4063
    • O'Shea, Y.A.1    Finnan, S.2    Reen, F.J.3    Morrissey, J.P.4    O'Gara, F.5    Boyd, E.F.6
  • 22
    • 1842507580 scopus 로고    scopus 로고
    • A systematic method to identify genomic islands and its applications in analyzing the genomes of Corynebacterium glutamicum and Vibrio vulnificus CMCP6 chromosome I
    • Zhang R, Zhang CT: A systematic method to identify genomic islands and its applications in analyzing the genomes of Corynebacterium glutamicum and Vibrio vulnificus CMCP6 chromosome I. Bioinformatics 2004, 20(5):612-622.
    • (2004) Bioinformatics , vol.20 , Issue.5 , pp. 612-622
    • Zhang, R.1    Zhang, C.T.2
  • 23
    • 0036598066 scopus 로고    scopus 로고
    • Gene transfer in bacteria: Speciation without species?
    • Lawrence JG: Gene transfer in bacteria: speciation without species? Theor Popul Biol 2002, 61(4):449-460.
    • (2002) Theor. Popul. Biol. , vol.61 , Issue.4 , pp. 449-460
    • Lawrence, J.G.1
  • 24
    • 18844397544 scopus 로고    scopus 로고
    • From The Cover: Global divergence of microbial genome sequences mediated by propagating fronts
    • Vetsigian K, Goldenfeld N: From The Cover: Global divergence of microbial genome sequences mediated by propagating fronts. Proc Natl Acad Sci U S A 2005,102(20):7332-7337.
    • (2005) Proc. Natl. Acad. Sci. U. S. A. , vol.102 , Issue.20 , pp. 7332-7337
    • Vetsigian, K.1    Goldenfeld, N.2
  • 27
    • 0029060923 scopus 로고
    • Dinucleotide relative abundance extremes: A genomic signature
    • Karlin S, Burge C: Dinucleotide relative abundance extremes: a genomic signature. Trends Genet 1995, 11(7):283-290.
    • (1995) Trends Genet. , vol.11 , Issue.7 , pp. 283-290
    • Karlin, S.1    Burge, C.2
  • 29
    • 80055091440 scopus 로고    scopus 로고
    • The R project for statistical computing
    • The R project for statistical computing [http://www.r-project.org/].
  • 30
    • 28344436399 scopus 로고    scopus 로고
    • The Institute for Genome Research
    • The Institute for Genome Research [http://www.tigr.org/].


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.