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Volumn 8, Issue 11, 2007, Pages

The determinants of gene order conservation in yeasts

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; CONTROLLED STUDY; COVARIANCE; ESSENTIAL GENE; FUNGAL GENETICS; GENE DUPLICATION; GENE EXPRESSION; GENE ORDER; GENETIC CONSERVATION; GENETIC DISTANCE; GENETIC LINKAGE; GENETIC RECOMBINATION; GENETIC REGULATION; MOLECULAR EVOLUTION; NONHUMAN; SACCHAROMYCES CEREVISIAE; SIMULATION; SPECIES COMPARISON; SYNTENY; YEAST; BIOLOGICAL MODEL; CANDIDA; CHROMOSOME; EVOLUTION; FUNGAL GENE; GENETICS;

EID: 42649133497     PISSN: 14747596     EISSN: 1474760X     Source Type: Journal    
DOI: 10.1186/gb-2007-8-11-r233     Document Type: Article
Times cited : (50)

References (37)
  • 1
    • 0003019233 scopus 로고
    • Evolution of the eukaryotic genome
    • Cambridge: Cambridge University Press Broda P, Oliver S, Sims P
    • Cavalier-Smith T Evolution of the eukaryotic genome. The Eukaryotic Genome: Organization and Regulation Cambridge: Cambridge University Press Broda P, Oliver S, Sims P 1993 333-385
    • (1993) The Eukaryotic Genome: Organization and Regulation , pp. 333-385
    • Cavalier-Smith, T.1
  • 3
    • 1842427830 scopus 로고    scopus 로고
    • The evolutionary dynamics of eukaryotic gene order
    • 10.1038/nrg1319 15131653
    • Hurst LD Pál C Lercher MJ The evolutionary dynamics of eukaryotic gene order. Nat Rev Genet 2004 5 299-310 10.1038/nrg1319 15131653
    • (2004) Nat Rev Genet , vol.5 , pp. 299-310
    • Hurst, L.D.1    Pál, C.2    Lercher, M.J.3
  • 4
    • 0036613754 scopus 로고    scopus 로고
    • Clustering of housekeeping genes provides a unified model of gene order in the human genome
    • 10.1038/ng887 11992122
    • Lercher MJ Urrutia AO Hurst LD Clustering of housekeeping genes provides a unified model of gene order in the human genome. Nat Genet 2002 31 180-183 10.1038/ng887 11992122
    • (2002) Nat Genet , vol.31 , pp. 180-183
    • Lercher, M.J.1    Urrutia, A.O.2    Hurst, L.D.3
  • 5
    • 0141506898 scopus 로고    scopus 로고
    • A unification of mosaic structures in the human genome
    • 10.1093/hmg/ddg251 12915446
    • Lercher MJ Urrutia AO Pavlícek A Hurst LD A unification of mosaic structures in the human genome. Hum Mol Genet 2003 12 2411-2415 10.1093/ hmg/ddg251 12915446
    • (2003) Hum Mol Genet , vol.12 , pp. 2411-2415
    • Lercher, M.J.1    Urrutia, A.O.2    Pavlícek, A.3    Hurst, L.D.4
  • 7
    • 0141854009 scopus 로고    scopus 로고
    • The human transcriptome map reveals extremes in gene density, intron length, GC content, and repeat pattern for domains of highly and weakly expressed genes
    • 403669 12915492 10.1101/gr.1649303
    • Versteeg R van Schaik BD van Batenburg MF Roos M Monajemi R Caron H Bussemaker HJ van Kampen AH The human transcriptome map reveals extremes in gene density, intron length, GC content, and repeat pattern for domains of highly and weakly expressed genes. Genome Res 2003 13 1998-2004 403669 12915492 10.1101/gr.1649303
    • (2003) Genome Res , vol.13 , pp. 1998-2004
    • Versteeg, R.1    van Schaik, B.D.2    van Batenburg, M.F.3    Roos, M.4    Monajemi, R.5    Caron, H.6    Bussemaker, H.J.7    van Kampen, A.H.8
  • 8
    • 0033780450 scopus 로고    scopus 로고
    • A computational analysis of whole-genome expression data reveals chromosomal domains of gene expression
    • 10.1038/79896 11017073
    • Cohen BA Mitra RD Hughes JD Church GM A computational analysis of whole-genome expression data reveals chromosomal domains of gene expression. Nat Genet 2000 26 183-186 10.1038/79896 11017073
    • (2000) Nat Genet , vol.26 , pp. 183-186
    • Cohen, B.A.1    Mitra, R.D.2    Hughes, J.D.3    Church, G.M.4
  • 9
    • 0038104857 scopus 로고    scopus 로고
    • Genomic gene clustering analysis of pathways in eukaryotes
    • 430880 12695325 10.1101/gr.737703
    • Lee JM Sonnhammer EL Genomic gene clustering analysis of pathways in eukaryotes. Genome Res 2003 13 875-882 430880 12695325 10.1101/gr.737703
    • (2003) Genome Res , vol.13 , pp. 875-882
    • Lee, J.M.1    Sonnhammer, E.L.2
  • 10
    • 22844450779 scopus 로고    scopus 로고
    • Birth of a metabolic gene cluster in yeast by adaptive gene relocation
    • 10.1038/ng1584 15951822
    • Wong S Wolfe KH Birth of a metabolic gene cluster in yeast by adaptive gene relocation. Nat Genet 2005 37 777-782 10.1038/ng1584 15951822
    • (2005) Nat Genet , vol.37 , pp. 777-782
    • Wong, S.1    Wolfe, K.H.2
  • 11
    • 4644358610 scopus 로고    scopus 로고
    • Genes encoding subunits of stable complexes are clustered on the yeast chromosomes: An interpretation from a dosage balance perspective
    • 1471008 15342545 10.1534/genetics.103.024505
    • Teichmann SA Veitia RA Genes encoding subunits of stable complexes are clustered on the yeast chromosomes: An interpretation from a dosage balance perspective. Genetics 2004 167 2121-2125 1471008 15342545 10.1534/genetics.103.024505
    • (2004) Genetics , vol.167 , pp. 2121-2125
    • Teichmann, S.A.1    Veitia, R.A.2
  • 12
    • 33746216861 scopus 로고    scopus 로고
    • Is optimal gene order impossible?
    • 10.1016/j.tig.2006.06.003 16806566
    • Poyatos JF Hurst LD Is optimal gene order impossible? Trends Genet 2006 22 420-423 10.1016/j.tig.2006.06.003 16806566
    • (2006) Trends Genet , vol.22 , pp. 420-423
    • Poyatos, J.F.1    Hurst, L.D.2
  • 13
    • 0037869108 scopus 로고    scopus 로고
    • Periodic epi-organization of the yeast genome revealed by the distribution of promoter sites
    • 10.1016/S0022-2836(03)00535-7 12798677
    • Képès F Periodic epi-organization of the yeast genome revealed by the distribution of promoter sites. J Mol Biol 2003 329 859-865 10.1016/S0022-2836(03)00535-7 12798677
    • (2003) J Mol Biol , vol.329 , pp. 859-865
    • Képès, F.1
  • 14
    • 33646779915 scopus 로고    scopus 로고
    • Co-expressed yeast genes cluster over a long range but are not regularly spaced
    • 10.1016/j.jmb.2006.03.051 16631793
    • Lercher MJ Hurst LD Co-expressed yeast genes cluster over a long range but are not regularly spaced. J Mol Biol 2006 359 825-831 10.1016/ j.jmb.2006.03.051 16631793
    • (2006) J Mol Biol , vol.359 , pp. 825-831
    • Lercher, M.J.1    Hurst, L.D.2
  • 15
    • 0037371689 scopus 로고    scopus 로고
    • Evidence for co-evolution of gene order and recombination rate
    • 10.1038/ng1111 12577060
    • Pál C Hurst LD Evidence for co-evolution of gene order and recombination rate. Nat Genet 2003 33 392-395 10.1038/ng1111 12577060
    • (2003) Nat Genet , vol.33 , pp. 392-395
    • Pál, C.1    Hurst, L.D.2
  • 16
    • 34547519199 scopus 로고    scopus 로고
    • Evolution of chromosome organization driven by selection for reduced gene expression noise
    • 10.1038/ng2071 17660811
    • Batada N Hurst LD Evolution of chromosome organization driven by selection for reduced gene expression noise. Nat Genet 2007 39 945-949 10.1038/ng2071 17660811
    • (2007) Nat Genet , vol.39 , pp. 945-949
    • Batada, N.1    Hurst, L.D.2
  • 17
    • 0036890388 scopus 로고    scopus 로고
    • Natural selection promotes the conservation of linkage of co-expressed genes
    • 10.1016/S0168-9525(02)02813-5 12446137
    • Hurst LD Williams EJ Pál C Natural selection promotes the conservation of linkage of co-expressed genes. Trends Genet 2002 18 604-606 10.1016/S0168-9525(02)02813-5 12446137
    • (2002) Trends Genet , vol.18 , pp. 604-606
    • Hurst, L.D.1    Williams, E.J.2    Pál, C.3
  • 18
    • 33645787782 scopus 로고    scopus 로고
    • Highly variable rates of genome rearrangements between hemiascomycetous yeast lineages
    • 1391921 16532063 10.1371/journal.pgen.0020032
    • Fischer G Rocha EP Brunet F Vergassola M Dujon B Highly variable rates of genome rearrangements between hemiascomycetous yeast lineages. PLoS Genet 2006 2 e32 1391921 16532063 10.1371/journal.pgen.0020032
    • (2006) PLoS Genet , vol.2
    • Fischer, G.1    Rocha, E.P.2    Brunet, F.3    Vergassola, M.4    Dujon, B.5
  • 19
    • 0002617971 scopus 로고    scopus 로고
    • High frequency of inversions during eukaryote gene order evolution
    • Dordrecht: Kluwer Academic Publishers Sankoff D, Nadeau JH
    • McLysaght A Seoighe C Wolfe K High frequency of inversions during eukaryote gene order evolution. Comparative Genomics Dordrecht: Kluwer Academic Publishers Sankoff D, Nadeau JH 2000 47-58
    • (2000) Comparative Genomics , pp. 47-58
    • McLysaght, A.1    Seoighe, C.2    Wolfe, K.3
  • 20
    • 33646200155 scopus 로고    scopus 로고
    • Expression dynamics of a cellular metabolic network
    • 1681454 16729051 10.1038/msb4100023 2005.0016 2005.0016
    • Kharchenko P Church GM Vitkup D Expression dynamics of a cellular metabolic network. Mol Syst Biol 2005 1 2005.0016 2005.0016 1681454 16729051 10.1038/msb4100023
    • (2005) Mol Syst Biol , vol.1
    • Kharchenko, P.1    Church, G.M.2    Vitkup, D.3
  • 21
    • 0034161444 scopus 로고    scopus 로고
    • Regulation of adjacent yeast genes
    • 10.1016/S0168-9525(99)01941-1 10689350
    • Kruglyak S Tang H Regulation of adjacent yeast genes. Trends Genet 2000 16 109-111 10.1016/S0168-9525(99)01941-1 10689350
    • (2000) Trends Genet , vol.16 , pp. 109-111
    • Kruglyak, S.1    Tang, H.2
  • 22
    • 33644875753 scopus 로고    scopus 로고
    • Visualizing syntenic relationships among the hemiascomycetes with the Yeast Gene Order Browser
    • 34(Database issue) 1347404 16381909 10.1093/nar/gkj041
    • Byrne KP Wolfe KH Visualizing syntenic relationships among the hemiascomycetes with the Yeast Gene Order Browser. Nucleic Acids Res 2006 34(Database issue) D452-455 1347404 16381909 10.1093/nar/gkj041
    • (2006) Nucleic Acids Res
    • Byrne, K.P.1    Wolfe, K.H.2
  • 23
    • 33645023614 scopus 로고    scopus 로고
    • Multiple rounds of speciation associated with reciprocal gene loss in polyploid yeasts
    • 10.1038/nature04562 16541074
    • Scannell DR Byrne KP Gordon JL Wong S Wolfe KH Multiple rounds of speciation associated with reciprocal gene loss in polyploid yeasts. Nature 2006 440 341-345 10.1038/nature04562 16541074
    • (2006) Nature , vol.440 , pp. 341-345
    • Scannell, D.R.1    Byrne, K.P.2    Gordon, J.L.3    Wong, S.4    Wolfe, K.H.5
  • 24
  • 25
    • 0141703251 scopus 로고    scopus 로고
    • Synteny perturbations between wheat homoeologous chromosomes caused by locus duplications and deletions correlate with recombination rates
    • 196889 12960374 10.1073/pnas.1934431100
    • Akhunov ED Akhunova AR Linkiewicz AM Dubcovsky J Hummel D Lazo G Chao S Anderson OD David J Qi L et al. Synteny perturbations between wheat homoeologous chromosomes caused by locus duplications and deletions correlate with recombination rates. Proc Natl Acad Sci USA 2003 100 10836-10841 196889 12960374 10.1073/pnas.1934431100
    • (2003) Proc Natl Acad Sci USA , vol.100 , pp. 10836-10841
    • Akhunov, E.D.1    Akhunova, A.R.2    Linkiewicz, A.M.3    Dubcovsky, J.4    Hummel, D.5    Lazo, G.6    Chao, S.7    Anderson, O.D.8    David, J.9    Qi, L.10
  • 26
    • 2942743530 scopus 로고    scopus 로고
    • Genome compaction and stability in microsporidian intracellular parasites
    • 10.1016/j.cub.2004.04.041 15186746
    • Slamovits CH Fast NM Law JS Keeling PJ Genome compaction and stability in microsporidian intracellular parasites. Curr Biol 2004 14 891-896 10.1016/j.cub.2004.04.041 15186746
    • (2004) Curr Biol , vol.14 , pp. 891-896
    • Slamovits, C.H.1    Fast, N.M.2    Law, J.S.3    Keeling, P.J.4
  • 27
    • 12744263078 scopus 로고    scopus 로고
    • Comparative architectures of mammalian and chicken genomes reveal highly variable rates of genomic rearrangements across different lineages
    • 540283 15590940 10.1101/gr.3002305
    • Bourque G Zdobnov EM Bork P Pevzner PA Tesler G Comparative architectures of mammalian and chicken genomes reveal highly variable rates of genomic rearrangements across different lineages. Genome Res 2005 15 98-110 540283 15590940 10.1101/gr.3002305
    • (2005) Genome Res , vol.15 , pp. 98-110
    • Bourque, G.1    Zdobnov, E.M.2    Bork, P.3    Pevzner, P.A.4    Tesler, G.5
  • 28
    • 14544301584 scopus 로고    scopus 로고
    • Clusters of co-expressed genes in mammalian genomes are conserved by natural selection
    • 10.1093/molbev/msi062 15574806
    • Singer GA Lloyd AT Huminiecki LB Wolfe KH Clusters of co-expressed genes in mammalian genomes are conserved by natural selection. Mol Biol Evol 2005 22 767-775 10.1093/molbev/msi062 15574806
    • (2005) Mol Biol Evol , vol.22 , pp. 767-775
    • Singer, G.A.1    Lloyd, A.T.2    Huminiecki, L.B.3    Wolfe, K.H.4
  • 29
    • 34249730029 scopus 로고    scopus 로고
    • Regional variation in the density of essential genes in mice
    • 1865562 17480122 10.1371/journal.pgen.0030072
    • Hentges KE Pollock DD Liu B Justice MJ Regional variation in the density of essential genes in mice. PLoS Genet 2007 3 e72 1865562 17480122 10.1371/journal.pgen.0030072
    • (2007) PLoS Genet , vol.3
    • Hentges, K.E.1    Pollock, D.D.2    Liu, B.3    Justice, M.J.4
  • 30
    • 0037313750 scopus 로고    scopus 로고
    • Genome-scale reconstruction of the Saccharomyces cerevisiae metabolic network
    • 420374 12566402 10.1101/gr.234503
    • Förster J Famili I Fu P Palsson BO Nielsen J Genome-scale reconstruction of the Saccharomyces cerevisiae metabolic network. Genome Res 2003 13 244-253 420374 12566402 10.1101/gr.234503
    • (2003) Genome Res , vol.13 , pp. 244-253
    • Förster, J.1    Famili, I.2    Fu, P.3    Palsson, B.O.4    Nielsen, J.5
  • 31
    • 15044353444 scopus 로고    scopus 로고
    • Transcription control reprogramming in genetic backup circuits
    • 10.1038/ng1523 15723064
    • Kafri R Bar-Even A Pilpel Y Transcription control reprogramming in genetic backup circuits. Nat Genet 2005 37 295-299 10.1038/ng1523 15723064
    • (2005) Nat Genet , vol.37 , pp. 295-299
    • Kafri, R.1    Bar-Even, A.2    Pilpel, Y.3
  • 34
    • 0034633494 scopus 로고    scopus 로고
    • Inaugural article: Global mapping of meiotic recombination hotspots and coldspots in the yeast Saccharomyces cerevisiae
    • 17209 11027339 10.1073/pnas.97.21.11383
    • Gerton JL DeRisi J Shroff R Lichten M Brown PO Petes TD Inaugural article: Global mapping of meiotic recombination hotspots and coldspots in the yeast Saccharomyces cerevisiae. Proc Natl Acad Sci USA 2000 97 11383-11390 17209 11027339 10.1073/pnas.97.21.11383
    • (2000) Proc Natl Acad Sci USA , vol.97 , pp. 11383-11390
    • Gerton, J.L.1    DeRisi, J.2    Shroff, R.3    Lichten, M.4    Brown, P.O.5    Petes, T.D.6
  • 36
    • 33750238153 scopus 로고    scopus 로고
    • Stratus not altocumulus: A new view of the yeast protein interaction network
    • 1569888 16984220 10.1371/journal.pbio.0040317
    • Batada NN Reguly T Breitkreutz A Boucher L Breitkreutz BJ Hurst LD Tyers M Stratus not altocumulus: A new view of the yeast protein interaction network. PLoS Biol 2006 4 e317 1569888 16984220 10.1371/ journal.pbio.0040317
    • (2006) PLoS Biol , vol.4
    • Batada, N.N.1    Reguly, T.2    Breitkreutz, A.3    Boucher, L.4    Breitkreutz, B.J.5    Hurst, L.D.6    Tyers, M.7
  • 37
    • 30744441602 scopus 로고    scopus 로고
    • A single determinant dominates the rate of yeast protein evolution
    • 10.1093/molbev/msj038 16237209
    • Drummond DA Raval A Wilke CO A single determinant dominates the rate of yeast protein evolution. Mol Biol Evol 2006 23 327-337 10.1093/molbev/ msj038 16237209
    • (2006) Mol Biol Evol , vol.23 , pp. 327-337
    • Drummond, D.A.1    Raval, A.2    Wilke, C.O.3


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