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Volumn 12, Issue 4, 2004, Pages 148-154

Gene duplication and biased functional retention of paralogs in bacterial genomes

Author keywords

[No Author keywords available]

Indexed keywords

ADAPTATION; BACTERIAL GENE; BACTERIAL STRAIN; GENE DUPLICATION; GENE FUNCTION; GENE SEQUENCE; GENETIC TRANSCRIPTION; GENOME ANALYSIS; METABOLISM; NONHUMAN; OPERON; PARALOGY; PHYLOGENETIC TREE; PRIORITY JOURNAL; REVIEW; TANDEM REPEAT;

EID: 1642266935     PISSN: 0966842X     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.tim.2004.02.007     Document Type: Short Survey
Times cited : (141)

References (34)
  • 1
    • 0033278954 scopus 로고    scopus 로고
    • Pervasiveness of gene conservation and persistence of duplicates in cellular genomes
    • Tekaia F., Dujon B. Pervasiveness of gene conservation and persistence of duplicates in cellular genomes. J. Mol. Evol. 49:1999;591-600.
    • (1999) J. Mol. Evol. , vol.49 , pp. 591-600
    • Tekaia, F.1    Dujon, B.2
  • 2
    • 0030884601 scopus 로고    scopus 로고
    • A comparative study of duplications in bacteria and eukaryotes: The importance of telomeres
    • Coissac E., et al. A comparative study of duplications in bacteria and eukaryotes: the importance of telomeres. Mol. Biol. Evol. 14:1997;1062-1074.
    • (1997) Mol. Biol. Evol. , vol.14 , pp. 1062-1074
    • Coissac, E.1
  • 3
    • 0042318548 scopus 로고    scopus 로고
    • Associations between inverted repeats and the structural evolution of bacterial genomes
    • Achaz G., et al. Associations between inverted repeats and the structural evolution of bacterial genomes. Genetics. 164:2003;1279-1289.
    • (2003) Genetics , vol.164 , pp. 1279-1289
    • Achaz, G.1
  • 4
    • 0037803483 scopus 로고    scopus 로고
    • An appraisal of the potential for illegitimate recombination in bacterial genomes and its consequences: From duplications to genome reduction
    • Rocha E.P.C. An appraisal of the potential for illegitimate recombination in bacterial genomes and its consequences: from duplications to genome reduction. Genome Res. 13:2003;1123-1132.
    • (2003) Genome Res. , vol.13 , pp. 1123-1132
    • Rocha, E.P.C.1
  • 5
    • 0035895278 scopus 로고    scopus 로고
    • Genetic architecture of thermal adaptation in Escherichia coli
    • Riehle M.M., et al. Genetic architecture of thermal adaptation in Escherichia coli. Proc. Natl. Acad. Sci. U. S. A. 98:2001;525-530.
    • (2001) Proc. Natl. Acad. Sci. U. S. A. , vol.98 , pp. 525-530
    • Riehle, M.M.1
  • 6
    • 0242523875 scopus 로고    scopus 로고
    • Natural selection and the emergence of a mutation phenotype: An update of the evolutionary synthesis considering mechanisms that affect genome variation
    • Caporale L.H. Natural selection and the emergence of a mutation phenotype: an update of the evolutionary synthesis considering mechanisms that affect genome variation. Annu. Rev. Microbiol. 57:2003;467-485.
    • (2003) Annu. Rev. Microbiol. , vol.57 , pp. 467-485
    • Caporale, L.H.1
  • 7
    • 0031973901 scopus 로고    scopus 로고
    • The cspA family in Escherichia coli: Multiple gene duplication for stress adaptation
    • Yamanaka K., et al. The cspA family in Escherichia coli: multiple gene duplication for stress adaptation. Mol. Microbiol. 27:1998;247-255.
    • (1998) Mol. Microbiol. , vol.27 , pp. 247-255
    • Yamanaka, K.1
  • 8
    • 0035046878 scopus 로고    scopus 로고
    • Lineage-specific gene expansions in Bacterial and Archaeal genomes
    • Jordan I.K., et al. Lineage-specific gene expansions in Bacterial and Archaeal genomes. Genome Res. 11:2001;555-565.
    • (2001) Genome Res. , vol.11 , pp. 555-565
    • Jordan, I.K.1
  • 9
    • 0037572262 scopus 로고    scopus 로고
    • On the nature of gene innovation: Duplication patterns in microbial genomes
    • Hooper S.D., Berg O.G. On the nature of gene innovation: duplication patterns in microbial genomes. Mol. Biol. Evol. 20:2003;945-954.
    • (2003) Mol. Biol. Evol. , vol.20 , pp. 945-954
    • Hooper, S.D.1    Berg, O.G.2
  • 10
    • 0038486918 scopus 로고    scopus 로고
    • The balance of driving forces during genome evolution in prokaryotes
    • Kunin V., Ouzounis C.A. The balance of driving forces during genome evolution in prokaryotes. Genome Res. 13:2003;1589-1594.
    • (2003) Genome Res. , vol.13 , pp. 1589-1594
    • Kunin, V.1    Ouzounis, C.A.2
  • 11
    • 0036143446 scopus 로고    scopus 로고
    • Genomes in flux: The evolution of Archaeal and proteobacterial gene content
    • Snel B., et al. Genomes in flux: the evolution of Archaeal and proteobacterial gene content. Genome Res. 12:2002;17-25.
    • (2002) Genome Res. , vol.12 , pp. 17-25
    • Snel, B.1
  • 12
    • 33746683240 scopus 로고    scopus 로고
    • Evaluating genome dynamics: The constraints on rearrangements within bacterial genomes
    • REVIEWS0006
    • Hughes, D. (2000) Evaluating genome dynamics: the constraints on rearrangements within bacterial genomes. Genome Biol 1, REVIEWS0006 ( http://genomebiology.com/2000/1/6/reviews/0006).
    • (2000) Genome Biol , vol.1
    • Hughes, D.1
  • 13
    • 0032482924 scopus 로고    scopus 로고
    • Molecular archaeology of the Escherichia coli genome
    • Lawrence J.G., Ochman H. Molecular archaeology of the Escherichia coli genome. Proc. Natl. Acad. Sci. U. S. A. 95:1998;9413-9417.
    • (1998) Proc. Natl. Acad. Sci. U. S. A. , vol.95 , pp. 9413-9417
    • Lawrence, J.G.1    Ochman, H.2
  • 14
    • 0033058895 scopus 로고    scopus 로고
    • Evolutionary instability of operon structures disclosed by sequence comparisons of complete microbial genomes
    • Itoh T., et al. Evolutionary instability of operon structures disclosed by sequence comparisons of complete microbial genomes. Mol. Biol. Evol. 16:1999;332-346.
    • (1999) Mol. Biol. Evol. , vol.16 , pp. 332-346
    • Itoh, T.1
  • 15
    • 0042902833 scopus 로고    scopus 로고
    • The COG database: An updated version includes eukaryotes
    • Tatusov R.L., et al. The COG database: an updated version includes eukaryotes. BMC Bioinformatics. 4:2003;41.
    • (2003) BMC Bioinformatics , vol.4 , pp. 41
    • Tatusov, R.L.1
  • 16
    • 0343384158 scopus 로고    scopus 로고
    • Paralogous genes encoding transport proteins in microbial genomes
    • Saier M.H., Paulsen I.T. Paralogous genes encoding transport proteins in microbial genomes. Res. Microbiol. 150:1999;689-699.
    • (1999) Res. Microbiol. , vol.150 , pp. 689-699
    • Saier, M.H.1    Paulsen, I.T.2
  • 17
    • 0032708648 scopus 로고    scopus 로고
    • Analysis of the proteome of Mycobacterium tuberculosis in silico
    • Tekaia F., et al. Analysis of the proteome of Mycobacterium tuberculosis in silico. Tuber. Lung Dis. 79:1999;329-342.
    • (1999) Tuber. Lung Dis. , vol.79 , pp. 329-342
    • Tekaia, F.1
  • 18
    • 0032512051 scopus 로고    scopus 로고
    • The genome sequence of Rickettsia prowazekii and the origin of mitochondria
    • Andersson S.G., et al. The genome sequence of Rickettsia prowazekii and the origin of mitochondria. Nature. 396:1998;133-140.
    • (1998) Nature , vol.396 , pp. 133-140
    • Andersson, S.G.1
  • 19
    • 0031470826 scopus 로고    scopus 로고
    • Genomic sequence of a Lyme disease spirochaete, Borrelia burgdorferi
    • Fraser C.M., et al. Genomic sequence of a Lyme disease spirochaete, Borrelia burgdorferi. Nature. 390:1997;580-586.
    • (1997) Nature , vol.390 , pp. 580-586
    • Fraser, C.M.1
  • 20
    • 0031753606 scopus 로고    scopus 로고
    • A comparative analysis of ABC transporters in complete microbial genomes
    • Tomii K., Kanehisa M. A comparative analysis of ABC transporters in complete microbial genomes. Genome Res. 8:1998;1048-1059.
    • (1998) Genome Res. , vol.8 , pp. 1048-1059
    • Tomii, K.1    Kanehisa, M.2
  • 21
    • 0030111235 scopus 로고    scopus 로고
    • Metabolism and evolution of Haemophilus influenzae deduced from a whole-genome comparison with Escherichia coli
    • Tatusov R.L., et al. Metabolism and evolution of Haemophilus influenzae deduced from a whole-genome comparison with Escherichia coli. Curr. Biol. 6:1996;279-291.
    • (1996) Curr. Biol. , vol.6 , pp. 279-291
    • Tatusov, R.L.1
  • 22
    • 0030249023 scopus 로고    scopus 로고
    • Non-orthologous gene displacement
    • Koonin E.V., et al. Non-orthologous gene displacement. Trends Genet. 12:1996;334-336.
    • (1996) Trends Genet. , vol.12 , pp. 334-336
    • Koonin, E.V.1
  • 23
    • 0036061865 scopus 로고    scopus 로고
    • A phylogenomic approach to bacterial phylogeny: Evidence of a core of genes sharing a common history
    • Daubin V., et al. A phylogenomic approach to bacterial phylogeny: evidence of a core of genes sharing a common history. Genome Res. 12:2002;1080-1090.
    • (2002) Genome Res. , vol.12 , pp. 1080-1090
    • Daubin, V.1
  • 24
    • 0035989633 scopus 로고    scopus 로고
    • Report of the ad hoc committee for the re-evaluation of the species definition in bacteriology
    • Stackebrandt E., et al. Report of the ad hoc committee for the re-evaluation of the species definition in bacteriology. Int. J. Syst. Evol. Microbiol. 52:2002;1043-1047.
    • (2002) Int. J. Syst. Evol. Microbiol. , vol.52 , pp. 1043-1047
    • Stackebrandt, E.1
  • 25
    • 1342271382 scopus 로고    scopus 로고
    • From gene trees to organismal phylogeny in prokaryotes: The case of the gamma-proteobacteria
    • Lerat E., et al. From gene trees to organismal phylogeny in prokaryotes: the case of the gamma-proteobacteria. PLoS Biol. 1:2003;E19.
    • (2003) PLoS Biol , vol.1 , pp. 19
    • Lerat, E.1
  • 26
    • 0037223416 scopus 로고    scopus 로고
    • Myriads of protein families, and still counting
    • Kunin V., et al. Myriads of protein families, and still counting. Genome Biol. 4:2003;401.
    • (2003) Genome Biol. , vol.4 , pp. 401
    • Kunin, V.1
  • 27
    • 0025183708 scopus 로고
    • Basic local alignment search tool
    • Altschul S.F., et al. Basic local alignment search tool. J. Mol. Biol. 215:1990;403-410.
    • (1990) J. Mol. Biol. , vol.215 , pp. 403-410
    • Altschul, S.F.1
  • 28
    • 0035865239 scopus 로고    scopus 로고
    • Evolutionary analyses of the human genome
    • Li W.H., et al. Evolutionary analyses of the human genome. Nature. 409:2001;847-849.
    • (2001) Nature , vol.409 , pp. 847-849
    • Li, W.H.1
  • 29
    • 0032962457 scopus 로고    scopus 로고
    • Twilight zone of protein sequence alignments
    • Rost B. Twilight zone of protein sequence alignments. Protein Eng. 12:1999;85-94.
    • (1999) Protein Eng. , vol.12 , pp. 85-94
    • Rost, B.1
  • 30
    • 0036852286 scopus 로고    scopus 로고
    • The automatic detection of homologous regions (ADHoRe) and its application to microcolinearity between Arabidopsis and rice
    • Vandepoele K., et al. The automatic detection of homologous regions (ADHoRe) and its application to microcolinearity between Arabidopsis and rice. Genome Res. 12:2002;1792-1801.
    • (2002) Genome Res. , vol.12 , pp. 1792-1801
    • Vandepoele, K.1
  • 31
    • 0037109058 scopus 로고    scopus 로고
    • The hidden duplication past of Arabidopsis thaliana
    • Simillion C., et al. The hidden duplication past of Arabidopsis thaliana. Proc. Natl. Acad. Sci. U. S. A. 99:2002;13627-13632.
    • (2002) Proc. Natl. Acad. Sci. U. S. A. , vol.99 , pp. 13627-13632
    • Simillion, C.1
  • 32
    • 0141564555 scopus 로고    scopus 로고
    • Evidence that rice and other cereals are ancient aneuploids
    • Vandepoele K., et al. Evidence that rice and other cereals are ancient aneuploids. Plant Cell. 15:2003;2192-2202.
    • (2003) Plant Cell , vol.15 , pp. 2192-2202
    • Vandepoele, K.1
  • 33
    • 0030965346 scopus 로고    scopus 로고
    • Construction of evolutionary distance trees with TREECON for Windows: Accounting for variation in nucleotide substitution rate among sites
    • Van de Peer Y., De Wachter R. Construction of evolutionary distance trees with TREECON for Windows: accounting for variation in nucleotide substitution rate among sites. Comput. Appl. Biosci. 13:1997;227-230.
    • (1997) Comput. Appl. Biosci. , vol.13 , pp. 227-230
    • Van De Peer, Y.1    De Wachter, R.2
  • 34
    • 0029789623 scopus 로고    scopus 로고
    • A quantitative map of nucleotide substitution rates in bacterial rRNA
    • Van de Peer Y., et al. A quantitative map of nucleotide substitution rates in bacterial rRNA. Nucleic Acids Res. 24:1996;3381-3391.
    • (1996) Nucleic Acids Res. , vol.24 , pp. 3381-3391
    • Van De Peer, Y.1


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