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Volumn 277, Issue 4, 2007, Pages 441-455

Non-random genomic divergence in repetitive sequences of human and chimpanzee in genes of different functional categories

Author keywords

Chimpanzee; Divergence; Evolution; Genes; Genetics; Genome; Human; Neuronal; Repeats; Transcription

Indexed keywords

REPETITIVE DNA; TRANSCRIPTION FACTOR;

EID: 33947368233     PISSN: 16174615     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00438-007-0210-8     Document Type: Article
Times cited : (6)

References (51)
  • 1
    • 0142059650 scopus 로고    scopus 로고
    • An Alu transposition model for the origin and expansion of human segmental duplications
    • Bailey JA, Liu G, Eichler EE (2003) An Alu transposition model for the origin and expansion of human segmental duplications. Am J Hum Genet 73:823-834
    • (2003) Am J Hum Genet , vol.73 , pp. 823-834
    • Bailey, J.A.1    Liu, G.2    Eichler, E.E.3
  • 2
    • 0028789672 scopus 로고
    • Simple repetitive sequences in the genome: Structure and functional significance
    • Brahmachari SK et al (1995) Simple repetitive sequences in the genome: structure and functional significance. Electrophoresis 16:1705-1714
    • (1995) Electrophoresis , vol.16 , pp. 1705-1714
    • Brahmachari, S.K.1
  • 3
    • 0037108783 scopus 로고    scopus 로고
    • Divergence between samples of chimpanzee and human DNA sequences is 5%, counting indels
    • Britten RJ (2002) Divergence between samples of chimpanzee and human DNA sequences is 5%, counting indels. Proc Natl Acad Sci USA 99:13633-13635
    • (2002) Proc Natl Acad Sci USA , vol.99 , pp. 13633-13635
    • Britten, R.J.1
  • 4
    • 0242268390 scopus 로고    scopus 로고
    • Elevated gene expression levels distinguish human from non-human primate brains
    • Caceres M et al (2003) Elevated gene expression levels distinguish human from non-human primate brains. Proc Natl Acad Sci USA 100:13030-13035
    • (2003) Proc Natl Acad Sci USA , vol.100 , pp. 13030-13035
    • Caceres, M.1
  • 6
    • 0035130163 scopus 로고    scopus 로고
    • Genomic divergences between humans and other hominoids and the effective population size of the common ancestor of humans and chimpanzees
    • Chen FC, Li WH (2001) Genomic divergences between humans and other hominoids and the effective population size of the common ancestor of humans and chimpanzees. Am J Hum Genet 68:444-456
    • (2001) Am J Hum Genet , vol.68 , pp. 444-456
    • Chen, F.C.1    Li, W.H.2
  • 7
    • 0035563653 scopus 로고    scopus 로고
    • Genomic divergence between human and chimpanzee estimated from large-scale alignments of genomic sequences
    • Chen FC, Vallender EJ, Wang H, Tzeng CS, Li WH (2001) Genomic divergence between human and chimpanzee estimated from large-scale alignments of genomic sequences. J Hered 92:481-489
    • (2001) J Hered , vol.92 , pp. 481-489
    • Chen, F.C.1    Vallender, E.J.2    Wang, H.3    Tzeng, C.S.4    Li, W.H.5
  • 8
    • 24344459066 scopus 로고    scopus 로고
    • A genome-wide comparison of recent chimpanzee and human segmental duplications
    • Cheng Z et al (2005) A genome-wide comparison of recent chimpanzee and human segmental duplications. Nature 437:88-93
    • (2005) Nature , vol.437 , pp. 88-93
    • Cheng, Z.1
  • 9
    • 0022496666 scopus 로고
    • DNA structural variability as a factor in gene expression and evolution
    • Conrad M, Brahmachari SK, Sasisekharan V (1986) DNA structural variability as a factor in gene expression and evolution. Biosystems 19:123-126
    • (1986) Biosystems , vol.19 , pp. 123-126
    • Conrad, M.1    Brahmachari, S.K.2    Sasisekharan, V.3
  • 11
    • 11144331051 scopus 로고    scopus 로고
    • Accelerated evolution of nervous system genes in the origin of Homo sapiens
    • Dorus S et al (2004) Accelerated evolution of nervous system genes in the origin of Homo sapiens. Cell 119:1027-1040
    • (2004) Cell , vol.119 , pp. 1027-1040
    • Dorus, S.1
  • 12
    • 0037066542 scopus 로고    scopus 로고
    • Intra- and interspecific variation in primate gene expression patterns
    • Enard W et al (2002) Intra- and interspecific variation in primate gene expression patterns. Science 296:340-343
    • (2002) Science , vol.296 , pp. 340-343
    • Enard, W.1
  • 13
    • 0028951144 scopus 로고
    • Nucleosome positioning by human Alu elements in chromatin
    • Englander EW, Howard BH (1995) Nucleosome positioning by human Alu elements in chromatin. J Biol Chem 270:10091-10096
    • (1995) J Biol Chem , vol.270 , pp. 10091-10096
    • Englander, E.W.1    Howard, B.H.2
  • 14
    • 0027304429 scopus 로고
    • Nucleosome interactions with a human Alu element. Transcriptional repression and effects of template methylation
    • Englander EW, Wolffe AP, Howard BH (1993) Nucleosome interactions with a human Alu element. Transcriptional repression and effects of template methylation. J Biol Chem 268:19565-19573
    • (1993) J Biol Chem , vol.268 , pp. 19565-19573
    • Englander, E.W.1    Wolffe, A.P.2    Howard, B.H.3
  • 15
    • 25444499171 scopus 로고    scopus 로고
    • Comparative analysis of chromatin landscape in regulatory regions of human housekeeping and tissue specific genes
    • Ganapathi M et al (2005) Comparative analysis of chromatin landscape in regulatory regions of human housekeeping and tissue specific genes. BMC Bioinformatics 6:126.:126
    • (2005) BMC Bioinformatics , vol.6 , Issue.126 , pp. 126
    • Ganapathi, M.1
  • 16
    • 1842684068 scopus 로고    scopus 로고
    • Genome sequence of the Brown Norway rat yields insights into mammalian evolution
    • Gibbs RA et al (2004) Genome sequence of the Brown Norway rat yields insights into mammalian evolution. Nature 428:493-521
    • (2004) Nature , vol.428 , pp. 493-521
    • Gibbs, R.A.1
  • 17
    • 0041886501 scopus 로고    scopus 로고
    • Natural selection on the olfactory receptor gene family in humans and chimpanzees
    • Gilad Y, Bustamante CD, Lancet D, Paabo S (2003) Natural selection on the olfactory receptor gene family in humans and chimpanzees. Am J Hum Genet 73:489-501
    • (2003) Am J Hum Genet , vol.73 , pp. 489-501
    • Gilad, Y.1    Bustamante, C.D.2    Lancet, D.3    Paabo, S.4
  • 18
    • 0042836785 scopus 로고    scopus 로고
    • Nonrandom distribution of alu elements in genes of various functional categories: Insight from analysis of human chromosomes 21 and 22
    • Grover D, Majumder PP, Rao B, Brahmachari SK, Mukerji M (2003) Nonrandom distribution of alu elements in genes of various functional categories: insight from analysis of human chromosomes 21 and 22. Mol Biol Evol 20:1420-1424
    • (2003) Mol Biol Evol , vol.20 , pp. 1420-1424
    • Grover, D.1    Majumder, P.P.2    Rao, B.3    Brahmachari, S.K.4    Mukerji, M.5
  • 19
    • 2342437120 scopus 로고    scopus 로고
    • Alu repeat analysis in the complete human genome: Trends and variations with respect to genomic composition
    • Grover D, Mukerji M, Bhatnagar P, Kannan K, Brahmachari SK (2004) Alu repeat analysis in the complete human genome: trends and variations with respect to genomic composition. Bioinformatics 20:813-817
    • (2004) Bioinformatics , vol.20 , pp. 813-817
    • Grover, D.1    Mukerji, M.2    Bhatnagar, P.3    Kannan, K.4    Brahmachari, S.K.5
  • 21
    • 0037303824 scopus 로고    scopus 로고
    • Induced gene expression in human brain after the split from chimpanzee
    • Gu J, Gu X (2003) Induced gene expression in human brain after the split from chimpanzee. Trends Genet 19:63-65
    • (2003) Trends Genet , vol.19 , pp. 63-65
    • Gu, J.1    Gu, X.2
  • 24
    • 8644284670 scopus 로고    scopus 로고
    • Clustering, duplication and chromosomal distribution of mouse SINE retrotransposons
    • Jurka J, Kohany O, Pavlicek A, Kapitonov VV, Jurka MV (2005b) Clustering, duplication and chromosomal distribution of mouse SINE retrotransposons. Cytogenet Genome Res 110:117-123
    • (2005) Cytogenet Genome Res , vol.110 , pp. 117-123
    • Jurka, J.1    Kohany, O.2    Pavlicek, A.3    Kapitonov, V.V.4    Jurka, M.V.5
  • 25
    • 15744388330 scopus 로고    scopus 로고
    • Evidence for widespread degradation of gene control regions in hominid genomes
    • Keightley PD, Lercher MJ, Eyre-Walker A (2005) Evidence for widespread degradation of gene control regions in hominid genomes. PLoS Biol 3:e42
    • (2005) PLoS Biol , vol.3
    • Keightley, P.D.1    Lercher, M.J.2    Eyre-Walker, A.3
  • 26
    • 0036226603 scopus 로고    scopus 로고
    • BLAT-the BLAST-like alignment tool
    • Kent WJ (2002) BLAT-the BLAST-like alignment tool. Genome Res 12:656-664
    • (2002) Genome Res , vol.12 , pp. 656-664
    • Kent, W.J.1
  • 27
    • 4444287699 scopus 로고    scopus 로고
    • Regional patterns of gene expression in human and chimpanzee brains
    • Khaitovich P et al (2004a) Regional patterns of gene expression in human and chimpanzee brains. Genome Res 14:1462-1473
    • (2004) Genome Res , vol.14 , pp. 1462-1473
    • Khaitovich, P.1
  • 28
    • 19344372220 scopus 로고    scopus 로고
    • A neutral model of transcriptome evolution
    • Khaitovich P et al (2004b) A neutral model of transcriptome evolution. PLoS Biol 2:E132
    • (2004) PLoS Biol , vol.2
    • Khaitovich, P.1
  • 29
    • 22144447840 scopus 로고    scopus 로고
    • Parallel patterns of evolution in the genomes and transcriptomes of humans and chimpanzees
    • Khaitovich P et al (2005) Parallel patterns of evolution in the genomes and transcriptomes of humans and chimpanzees. Science 309:1850-1854
    • (2005) Science , vol.309 , pp. 1850-1854
    • Khaitovich, P.1
  • 30
    • 0016669094 scopus 로고
    • Evolution at two levels in humans and chimpanzees
    • King MC, Wilson AC (1975) Evolution at two levels in humans and chimpanzees. Science 188:107-116
    • (1975) Science , vol.188 , pp. 107-116
    • King, M.C.1    Wilson, A.C.2
  • 31
    • 19344374302 scopus 로고    scopus 로고
    • Accelerated evolution of the ASPM gene controlling brain size begins prior to human brain expansion
    • Kouprina N et al (2004) Accelerated evolution of the ASPM gene controlling brain size begins prior to human brain expansion. PLoS Biol 2:E126
    • (2004) PLoS Biol , vol.2
    • Kouprina, N.1
  • 32
    • 0042634355 scopus 로고    scopus 로고
    • Nature versus nurture revisited: An old idea with a new twist
    • Krubitzer L, Kahn DM (2003) Nature versus nurture revisited: an old idea with a new twist. Prog Neurobiol 70:33-52
    • (2003) Prog Neurobiol , vol.70 , pp. 33-52
    • Krubitzer, L.1    Kahn, D.M.2
  • 33
    • 0037208158 scopus 로고    scopus 로고
    • TRANSPATH: An integrated database on signal transduction and a tool for array analysis
    • Krull M, Voss N, Choi C, Pistor S, Potapov A, Wingender E (2003) TRANSPATH: an integrated database on signal transduction and a tool for array analysis. Nucleic Acids Res 31:97-100
    • (2003) Nucleic Acids Res , vol.31 , pp. 97-100
    • Krull, M.1    Voss, N.2    Choi, C.3    Pistor, S.4    Potapov, A.5    Wingender, E.6
  • 34
    • 2042437650 scopus 로고    scopus 로고
    • Initial sequencing and analysis of the human genome
    • Lander ES et al (2001) Initial sequencing and analysis of the human genome. Nature 409:860-921
    • (2001) Nature , vol.409 , pp. 860-921
    • Lander, E.S.1
  • 35
    • 28844482836 scopus 로고    scopus 로고
    • Genes involved in complex adaptive processes tend to have highly conserved upstream regions in mammalian genomes
    • Lee S, Kohane I, Kasif S (2005) Genes involved in complex adaptive processes tend to have highly conserved upstream regions in mammalian genomes. BMC Genomics 6:168-168
    • (2005) BMC Genomics , vol.6 , pp. 168-168
    • Lee, S.1    Kohane, I.2    Kasif, S.3
  • 36
    • 20444425693 scopus 로고    scopus 로고
    • An unusual primate locus that attracted two independent Alu insertions and facilitates their transcription
    • Ludwig A, Rozhdestvensky TS, Kuryshev VY, Schmitz J, Brosius J (2005) An unusual primate locus that attracted two independent Alu insertions and facilitates their transcription. J Mol Biol 350:200-214
    • (2005) J Mol Biol , vol.350 , pp. 200-214
    • Ludwig, A.1    Rozhdestvensky, T.S.2    Kuryshev, V.Y.3    Schmitz, J.4    Brosius, J.5
  • 37
    • 20444430245 scopus 로고    scopus 로고
    • A scan for positively selected genes in the genomes of humans and chimpanzees
    • Nielsen R, et al (2005) A scan for positively selected genes in the genomes of humans and chimpanzees. PLoS Biol 3:e170
    • (2005) PLoS Biol , vol.3
    • Nielsen, R.1
  • 38
    • 34248334698 scopus 로고    scopus 로고
    • Positive selection on the nonhomologous end-joining factor Cernunnos-XLF in the human lineage
    • Pavlicek A, Jurka J (2006) Positive selection on the nonhomologous end-joining factor Cernunnos-XLF in the human lineage. Biol Direct 1:15.:15
    • (2006) Biol Direct , vol.1 , Issue.15 , pp. 15
    • Pavlicek, A.1    Jurka, J.2
  • 40
    • 33745638358 scopus 로고    scopus 로고
    • Gametophytic selection in Arabidopsis thaliana supports the selective model of intron length reduction
    • Seoighe C, Gehring C, Hurst LD (2005) Gametophytic selection in Arabidopsis thaliana supports the selective model of intron length reduction. PLoS Genet 1:e13
    • (2005) PLoS Genet , vol.1
    • Seoighe, C.1    Gehring, C.2    Hurst, L.D.3
  • 41
    • 8744270242 scopus 로고    scopus 로고
    • Evolution and distribution of RNA polymerase II regulatory sites from RNA polymerase III dependant mobile Alu elements
    • Shankar R, Grover D, Brahmachari SK, Mukerji M (2004) Evolution and distribution of RNA polymerase II regulatory sites from RNA polymerase III dependant mobile Alu elements. BMC Evol Biol 4:37
    • (2004) BMC Evol Biol , vol.4 , pp. 37
    • Shankar, R.1    Grover, D.2    Brahmachari, S.K.3    Mukerji, M.4
  • 42
    • 0032403764 scopus 로고    scopus 로고
    • Otx1 and Otx2 in the development and evolution of the mammalian brain
    • Simeone A (1998) Otx1 and Otx2 in the development and evolution of the mammalian brain. EMBO J 17:6790-6798
    • (1998) EMBO J , vol.17 , pp. 6790-6798
    • Simeone, A.1
  • 43
    • 8744265059 scopus 로고    scopus 로고
    • Serial segmental duplications during primate evolution result in complex human genome architecture
    • Stankiewicz P, Shaw CJ, Withers M, Inoue K, Lupski JR (2004) Serial segmental duplications during primate evolution result in complex human genome architecture. Genome Res 14:2209-2220
    • (2004) Genome Res , vol.14 , pp. 2209-2220
    • Stankiewicz, P.1    Shaw, C.J.2    Withers, M.3    Inoue, K.4    Lupski, J.R.5
  • 44
    • 31844443500 scopus 로고    scopus 로고
    • Transposable elements as a significant source of transcription regulating signals. Gene
    • Epub;%2006 Jan 10:104-110
    • Thornburg BG, Gotea V, Makalowski W (2006) Transposable elements as a significant source of transcription regulating signals. Gene 365:104-110 (Epub;%2006 Jan 10:104-110)
    • (2006) , vol.365 , pp. 104-110
    • Thornburg, B.G.1    Gotea, V.2    Makalowski, W.3
  • 45
    • 1542297747 scopus 로고    scopus 로고
    • Sister grouping of chimpanzees and humans as revealed by genome-wide phylogenetic analysis of brain gene expression profiles
    • Uddin M et al (2004) Sister grouping of chimpanzees and humans as revealed by genome-wide phylogenetic analysis of brain gene expression profiles. Proc Natl Acad Sci USA 101:2957-2962
    • (2004) Proc Natl Acad Sci USA , vol.101 , pp. 2957-2962
    • Uddin, M.1
  • 46
    • 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
    • Versteeg R et al (2003) 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 13:1998-2004
    • (2003) Genome Res , vol.13 , pp. 1998-2004
    • Versteeg, R.1
  • 47
    • 33644652318 scopus 로고    scopus 로고
    • Genome design model: Evidence from conserved intronic sequence in human-mouse comparison
    • Vinogradov AE (2006) "Genome design" model: evidence from conserved intronic sequence in human-mouse comparison. Genome Res 16:347-354
    • (2006) Genome Res , vol.16 , pp. 347-354
    • Vinogradov, A.E.1
  • 48
    • 2642575083 scopus 로고    scopus 로고
    • DNA sequence and comparative analysis of chimpanzee chromosome 22
    • Watanabe H et al (2004) DNA sequence and comparative analysis of chimpanzee chromosome 22. Nature 429:382-388
    • (2004) Nature , vol.429 , pp. 382-388
    • Watanabe, H.1
  • 49
    • 1542563409 scopus 로고    scopus 로고
    • Initial sequencing and comparative analysis of the mouse genome
    • Waterston RH et al (2002) Initial sequencing and comparative analysis of the mouse genome. Nature 420:520-562
    • (2002) Nature , vol.420 , pp. 520-562
    • Waterston, R.H.1
  • 50
    • 0037326506 scopus 로고    scopus 로고
    • Compositional evolution of noncoding DNA in the human and chimpanzee genomes
    • Webster MT, Smith NG, Ellegren H (2003) Compositional evolution of noncoding DNA in the human and chimpanzee genomes. Mol Biol Evol 20:278-286
    • (2003) Mol Biol Evol , vol.20 , pp. 278-286
    • Webster, M.T.1    Smith, N.G.2    Ellegren, H.3
  • 51
    • 0027031113 scopus 로고
    • Transposable elements and the evolution of genome organization in mammals
    • Wichman HA, Van den Bussche RA, Hamilton MJ, Baker RJ (1992) Transposable elements and the evolution of genome organization in mammals. Genetica 86:287-293
    • (1992) Genetica , vol.86 , pp. 287-293
    • Wichman, H.A.1    Van den Bussche, R.A.2    Hamilton, M.J.3    Baker, R.J.4


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