메뉴 건너뛰기




Volumn 69, Issue 3, 2009, Pages 207-216

Genome desertification in eutherians: Can gene deserts explain the uneven distribution of genes in placental mammalian genomes?

Author keywords

Gene deserts; Genome evolution; Genome size; Mammalia

Indexed keywords

DNA;

EID: 70449527538     PISSN: 00222844     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00239-009-9251-4     Document Type: Article
Times cited : (6)

References (34)
  • 1
    • 2542542256 scopus 로고    scopus 로고
    • Ultraconserved elements in the human genome
    • DOI 10.1126/science.1098119
    • G Bejerano M Pheasant I Makunin S Stephen WJ Kent JS Mattick D Haussler 2004 Ultraconserved elements in the human genome Science 304 1321 1325 15131266 10.1126/science.1098119 1:CAS:528:DC%2BD2cXkt1Ggu7k%3D (Pubitemid 38697428)
    • (2004) Science , vol.304 , Issue.5675 , pp. 1321-1325
    • Bejerano, G.1    Pheasant, M.2    Makunin, I.3    Stephen, S.4    Kent, W.J.5    Mattick, J.S.6    Haussler, D.7
  • 2
    • 0035865202 scopus 로고    scopus 로고
    • Filling in the gaps
    • DOI 10.1038/35057274
    • P Bork R Copley 2001 The draft sequences. Filling in the gaps Nature 409 818 820 11236994 10.1038/35057274 (Pubitemid 32165328)
    • (2001) Nature , vol.409 , Issue.6822 , pp. 818-820
    • Bork, P.1    Copley, R.2
  • 4
    • 33644536713 scopus 로고    scopus 로고
    • Tunicates and not cephalochordates are the closest living relatives of vertebrates
    • DOI 10.1038/nature04336, PII N04336
    • F Delsuc H Brinkmann D Chourrout H Philippe 2006 Tunicates and not cephalochordates are the closest living relatives of vertebrates Nature 439 965 968 16495997 10.1038/nature04336 1:CAS:528:DC%2BD28Xhs1KjsLY%3D (Pubitemid 43292413)
    • (2006) Nature , vol.439 , Issue.7079 , pp. 965-968
    • Delsuc, F.1    Brinkmann, H.2    Chourrout, D.3    Philippe, H.4
  • 5
    • 13144295005 scopus 로고    scopus 로고
    • Conserved non-genic sequences - An unexpected feature of mammalian genomes
    • DOI 10.1038/nrg1527
    • ET Dermitzakis A Reymond SE Antonarakis 2005 Conserved non-genic sequences-an unexpected feature of mammalian genomes Nat Rev Genet 6 151 157 15716910 10.1038/nrg1527 1:CAS:528:DC%2BD2MXhtFyjsrk%3D (Pubitemid 40179538)
    • (2005) Nature Reviews Genetics , vol.6 , Issue.2 , pp. 151-157
    • Dermitzakis, E.T.1    Reymond, A.2    Antonarakis, S.E.3
  • 7
    • 36248988972 scopus 로고    scopus 로고
    • Mammalian karyotype evolution
    • DOI 10.1038/nrg2199, PII NRG2199
    • MA Ferguson-Smith V Trifonov 2007 Mammalian karyotype evolution Nat Rev Genet 8 950 962 18007651 10.1038/nrg2199 1:CAS:528:DC%2BD2sXhtlajtrbM (Pubitemid 350129170)
    • (2007) Nature Reviews Genetics , vol.8 , Issue.12 , pp. 950-962
    • Ferguson-Smith, M.A.1    Trifonov, V.2
  • 8
    • 0034001912 scopus 로고    scopus 로고
    • Using the past to predict the present: Confidence intervals for regression equations in phylogenetic comparative methods
    • DOI 10.1086/303327
    • TJ Garland AR Ives 2000 Using the past to predict the present: confidence intervals for regression equations in phylogenetic comparative methods Am Nat 155 346 364 10.1086/303327 (Pubitemid 30218224)
    • (2000) American Naturalist , vol.155 , Issue.3 , pp. 346-364
    • Garland Jr., T.1    Ives, A.R.2
  • 9
    • 23944504276 scopus 로고    scopus 로고
    • Synergy between sequence and size in large-scale genomics
    • DOI 10.1038/nrg1674
    • RT Gregory 2005 Synergy between sequence and size in the study of genomes Nat Rev Genet 6 699 708 16151375 10.1038/nrg1674 1:CAS:528:DC%2BD2MXps1erurw%3D (Pubitemid 41192321)
    • (2005) Nature Reviews Genetics , vol.6 , Issue.9 , pp. 699-708
    • Gregory, T.R.1
  • 10
    • 33748566229 scopus 로고    scopus 로고
    • Comparative genomics in prokaryotes
    • R.T. Gregory (eds). Elsevier San Diego, CA
    • Gregory RT, DeSalle R (2005) Comparative genomics in prokaryotes. In: Gregory RT (ed) The evolution of the genome. Elsevier, San Diego, CA, pp 585-675
    • (2005) The Evolution of the Genome , pp. 585-675
    • Gregory, R.T.1    Desalle, R.2
  • 11
    • 0242578620 scopus 로고    scopus 로고
    • A Simple, Fast, and Accurate Algorithm to Estimate Large Phylogenies by Maximum Likelihood
    • DOI 10.1080/10635150390235520
    • S Guindon O Gascuel 2003 PhyML - A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood Syst Biol 52 5 696 704 14530136 10.1080/10635150390235520 (Pubitemid 37365050)
    • (2003) Systematic Biology , vol.52 , Issue.5 , pp. 696-704
    • Guindon, S.1    Gascuel, O.2
  • 12
    • 27144552990 scopus 로고    scopus 로고
    • Identification of large ancient duplications associated with human gene deserts
    • DOI 10.1038/ng1648, PII N1648
    • T Itoh A Toyoda TD Taylor Y Sakaki M Hattori 2005 Identification of large ancient duplications associated with human gene deserts Nat Genet 37 1041 1043 16186813 10.1038/ng1648 1:CAS:528:DC%2BD2MXhtVCntLzM (Pubitemid 41486654)
    • (2005) Nature Genetics , vol.37 , Issue.10 , pp. 1041-1043
    • Itoh, T.1    Toyoda, A.2    Taylor, T.D.3    Sakaki, Y.4    Hattori, M.5
  • 14
    • 33645816587 scopus 로고    scopus 로고
    • Assessment of methods for amino acid matrix selection and their use on empirical data shows that ad hoc assumptions for choice of matrix are not justified
    • 16563161 10.1186/1471-2148-6-29
    • TM Keane CJ Creevey MM Pentony TJ Naughton JO McInerney 2006 Assessment of methods for amino acid matrix selection and their use on empirical data shows that ad hoc assumptions for choice of matrix are not justified BMC Evol Biol 6 29 16563161 10.1186/1471-2148-6-29
    • (2006) BMC Evol Biol , vol.6 , pp. 29
    • Keane, T.M.1    Creevey, C.J.2    Pentony, M.M.3    Naughton, T.J.4    McInerney, J.O.5
  • 15
    • 0036021699 scopus 로고    scopus 로고
    • Transposable elements and the evolution of genome size in eukaryotes
    • DOI 10.1023/A:1016072014259
    • MG Kidwell 2002 Transposable elements and the evolution of genome size in eukaryotes Genetica 115 49 63 12188048 10.1023/A:1016072014259 1:CAS:528:DC%2BD38XkvVaisLY%3D (Pubitemid 34842170)
    • (2002) Genetica , vol.115 , Issue.1 , pp. 49-63
    • Kidwell, M.G.1
  • 18
    • 34248159030 scopus 로고    scopus 로고
    • Suppression of long-branch attraction artefacts in the animal phylogeny using a site-heterogeneous model
    • DOI 10.1186/1471-2148-7-S1-S4
    • N Lartillot H Brinkmann H Philippe 2007 Suppression of long-branch attraction artefacts in the animal phylogeny using a site-heterogeneous model BMC Evol Biol 7 Suppl. 1 S4 17288577 10.1186/1471-2148-7-S1-S4 (Pubitemid 351826841)
    • (2007) BMC Evolutionary Biology , vol.7 , Issue.SUPPL. 1
    • Lartillot, N.1    Brinkmann, H.2    Philippe, H.3
  • 21
    • 0345306751 scopus 로고    scopus 로고
    • The Origins of Genome Complexity
    • DOI 10.1126/science.1089370
    • M Lynch JS Conery 2003 The origins of genome complexity Science 302 1401 1404 14631042 10.1126/science.1089370 1:CAS:528:DC%2BD3sXptVGjsrs%3D (Pubitemid 37452183)
    • (2003) Science , vol.302 , Issue.5649 , pp. 1401-1404
    • Lynch, M.1    Conery, J.S.2
  • 24
    • 34248576291 scopus 로고    scopus 로고
    • Genome of the marsupial Monodelphis domestica reveals innovation in non-coding sequences
    • DOI 10.1038/nature05805, PII NATURE05805
    • TS Mikkelsen MJ Wakefield B Aken CT Amemiya JL Chang S Duke M Garber AJ Gentles L Goodstadt A Heger, et al. 2007 Genome of the marsupial Monodelphis domestica reveals innovation in non-coding sequences Nature 447 167 177 17495919 10.1038/nature05805 1:CAS:528:DC%2BD2sXltVGrsLw%3D (Pubitemid 46763085)
    • (2007) Nature , vol.447 , Issue.7141 , pp. 167-177
    • Mikkelsen, T.S.1    Wakefield, M.J.2    Aken, B.3    Amemiya, C.T.4    Chang, J.L.5    Duke, S.6    Garber, M.7    Gentles, A.J.8    Goodstadt, L.9    Heger, A.10
  • 25
    • 4944260940 scopus 로고    scopus 로고
    • The regulatory content of intergenic DNA shapes genome architecture
    • 15059258 10.1186/gb-2004-5-4-r25
    • CE Nelson BM Hersh SB Carroll 2004 The regulatory content of intergenic DNA shapes genome architecture Genome Biol 5 R25 15059258 10.1186/gb-2004-5-4- r25
    • (2004) Genome Biol , vol.5 , pp. 25
    • Nelson, C.E.1    Hersh, B.M.2    Carroll, S.B.3
  • 26
    • 0142084743 scopus 로고    scopus 로고
    • Scanning Human Gene Deserts for Long-Range Enhancers
    • DOI 10.1126/science.1088328
    • MA Nobrega I Ovcharenko V Afzal EM Rubin 2003 Scanning human gene deserts for long-range enhancers Science 302 413 14563999 10.1126/science.1088328 1:CAS:528:DC%2BD3sXotlSns74%3D (Pubitemid 37296259)
    • (2003) Science , vol.302 , Issue.5644 , pp. 413
    • Nobrega, M.A.1    Ovcharenko, I.2    Afzal, V.3    Rubin, E.M.4
  • 27
    • 7244259100 scopus 로고    scopus 로고
    • Megabase deletions of gene deserts result in viable mice
    • DOI 10.1038/nature03022
    • MA Nobrega Y Zhu I Plajzer-Frick V Afzal EM Rubin 2004 Megabase deletions of gene deserts result in viable mice Nature 431 988 993 15496924 10.1038/nature03022 1:CAS:528:DC%2BD2cXoslSlt7k%3D (Pubitemid 39434420)
    • (2004) Nature , vol.431 , Issue.7011 , pp. 988-993
    • Nobrega, M.A.1    Zhu, Y.2    Plajer-Frick, I.3    Afzal, Y.4    Rubin, E.M.5
  • 28
    • 0002335754 scopus 로고
    • Dispensable genes
    • 10.1016/0168-9525(85)90070-8 1:CAS:528:DyaL2MXlslensrw%3D
    • S Ohno 1985 Dispensable genes Trends Genet 1 160 164 10.1016/0168- 9525(85)90070-8 1:CAS:528:DyaL2MXlslensrw%3D
    • (1985) Trends Genet , vol.1 , pp. 160-164
    • Ohno, S.1
  • 29
    • 12744261452 scopus 로고    scopus 로고
    • Evolution and functional classification of vertebrate gene deserts
    • 15590943 10.1101/gr.3015505 1:CAS:528:DC%2BD2MXlsVSrtQ%3D%3D
    • I Ovcharenko GG Loots MA Nobrega RC Hardison W Miller L Stubbs 2005 Evolution and functional classification of vertebrate gene deserts Genome Res 15 137 145 15590943 10.1101/gr.3015505 1:CAS:528:DC%2BD2MXlsVSrtQ%3D%3D
    • (2005) Genome Res , vol.15 , pp. 137-145
    • Ovcharenko, I.1    Loots, G.G.2    Nobrega, M.A.3    Hardison, R.C.4    Miller, W.5    Stubbs, L.6
  • 30
    • 22144473057 scopus 로고    scopus 로고
    • Arrays of ultraconserved non-coding regions span the loci of key developmental genes in vertebrate genomes
    • DOI 10.1186/1471-2164-5-99
    • A Sandelin P Bailey S Bruce PG Engstrom JM Klos WW Wasserman J Ericson B Lenhard 2004 Arrays of ultraconserved non-coding regions span the loci of key developmental genes in vertebrate genomes BMC Genomics 5 99 15613238 10.1186/1471-2164-5-99 (Pubitemid 41357634)
    • (2004) BMC Genomics , vol.5 , pp. 99
    • Sandelin, A.1    Bailey, P.2    Bruce, S.3    Engstrom, P.G.4    Klos, J.M.5    Wasserman, W.W.6    Ericson, J.7    Lenhard, B.8
  • 32
    • 19444364990 scopus 로고    scopus 로고
    • Clues to function in gene deserts
    • DOI 10.1016/j.tibtech.2005.04.003, PII S0167779905000879
    • J Taylor 2005 Clues to function in gene deserts Trends Biotechnol 23 269 271 15922077 10.1016/j.tibtech.2005.04.003 1:CAS:528:DC%2BD2MXks1Cnu7o%3D (Pubitemid 40726266)
    • (2005) Trends in Biotechnology , vol.23 , Issue.6 , pp. 269-271
    • Taylor, J.1
  • 34
    • 33646876182 scopus 로고    scopus 로고
    • Average gene length is highly conserved in prokaryotes and eukaryotes and diverges only between the two kingdoms
    • DOI 10.1093/molbev/msk019
    • L Xu H Chen X Hu R Zhang Z Zhang ZW Luo 2006 Average gene length is highly conserved in prokaryotes and eukaryotes and diverges only between the two kingdoms Mol Biol Evol 23 1107 1108 16611645 10.1093/molbev/msk019 1:CAS:528:DC%2BD28XlsVGqtbo%3D (Pubitemid 43781585)
    • (2006) Molecular Biology and Evolution , vol.23 , Issue.6 , pp. 1107-1108
    • Xu, L.1    Chen, H.2    Hu, X.3    Zhang, R.4    Zhang, Z.5    Luo, Z.W.6


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.