메뉴 건너뛰기




Volumn 162, Issue 4, 2002, Pages 1837-1847

Vanishing GC-rich isochores in mammalian genomes

Author keywords

[No Author keywords available]

Indexed keywords

ADENINE; CYTOSINE; GUANINE; THYMINE;

EID: 0036959203     PISSN: 00166731     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article
Times cited : (145)

References (51)
  • 2
    • 0030903283 scopus 로고    scopus 로고
    • Natural selection and the frequency distribution of "silent" DNA polymorphisms in Drosophila
    • AKASHI, K., and S. W. SCHAEFFER, 1997 Natural selection and the frequency distribution of "silent" DNA polymorphisms in Drosophila. Genetics 146: 295-307.
    • (1997) Genetics , vol.146 , pp. 295-307
    • Akashi, K.1    Schaeffer, S.W.2
  • 3
    • 0034748479 scopus 로고    scopus 로고
    • Compositional mapping of chicken chromosomes and identification of the gene-richest regions
    • ANDREOZZI, L., C. FEDERICO, S. MOTTA, S. SACCONE, A. L. SAZANOVA et al., 2001 Compositional mapping of chicken chromosomes and identification of the gene-richest regions. Chromosome Res. 9: 521-532.
    • (2001) Chromosome Res. , vol.9 , pp. 521-532
    • Andreozzi, L.1    Federico, C.2    Motta, S.3    Saccone, S.4    Sazanova, A.L.5
  • 4
    • 0033991967 scopus 로고    scopus 로고
    • Isochores and the evolutionary genomics of vertebrates
    • BERNARDI, G., 2000 Isochores and the evolutionary genomics of vertebrates. Gene 241: 3-17.
    • (2000) Gene , vol.241 , pp. 3-17
    • Bernardi, G.1
  • 5
    • 0025081043 scopus 로고
    • Compositional transitions in the nuclear genomes of cold-blooded vertebrates
    • BERNARDI, G., and G. BERNARDI, 1990 Compositional transitions in the nuclear genomes of cold-blooded vertebrates. J. Mol. Evol. 31: 282-293.
    • (1990) J. Mol. Evol. , vol.31 , pp. 282-293
    • Bernardi, G.1    Bernardi, G.2
  • 7
    • 0031029793 scopus 로고    scopus 로고
    • The major compositional transitions in the vertebrate genome
    • BERNARDI, G., S. HUGHES and D. MOUCHIROUD, 1997 The major compositional transitions in the vertebrate genome. J. Mol. Evol. 44: S44-S51.
    • (1997) J. Mol. Evol. , vol.44
    • Bernardi, G.1    Hughes, S.2    Mouchiroud, D.3
  • 8
    • 0033762460 scopus 로고    scopus 로고
    • Rates of nucleotide substitution and mammalian nuclear gene evolution: Approximate and maximum-likelihood methods lead to different conclusions
    • BIELAWSKI, J. P., K. A. DUNN and Z. YANG, 2000 Rates of nucleotide substitution and mammalian nuclear gene evolution: approximate and maximum-likelihood methods lead to different conclusions. Genetics 156: 1299-1308.
    • (2000) Genetics , vol.156 , pp. 1299-1308
    • Bielawski, J.P.1    Dunn, K.A.2    Yang, Z.3
  • 9
    • 0019322245 scopus 로고
    • DNA methylation and the frequency of CpG in animal DNA
    • BIRD, A. P., 1980 DNA methylation and the frequency of CpG in animal DNA. Nucleic Acids Res. 8: 1499-1504.
    • (1980) Nucleic Acids Res. , vol.8 , pp. 1499-1504
    • Bird, A.P.1
  • 10
    • 0032991552 scopus 로고    scopus 로고
    • Characterization of single-nucleotide polymorphisms in coding regions of human genes
    • CARGILL, M., D. ALTSHULER, J. IRELAND, P. SKLAR, K. ARDLIE et al., 1999 Characterization of single-nucleotide polymorphisms in coding regions of human genes. Nat. Genet. 22: 231-238.
    • (1999) Nat. Genet. , vol.22 , pp. 231-238
    • Cargill, M.1    Altshuler, D.2    Ireland, J.3    Sklar, P.4    Ardlie, K.5
  • 12
    • 0018185292 scopus 로고
    • Molecular basis of base substitution hotspots in Escherichia coli
    • COULONDRE, C.,J. H. MILLER, P.J. FARABAUGH and W. GILBERT, 1978 Molecular basis of base substitution hotspots in Escherichia coli. Nature 274: 775-780.
    • (1978) Nature , vol.274 , pp. 775-780
    • Coulondre, C.1    Miller, J.H.2    Farabaugh, P.J.3    Gilbert, W.4
  • 13
    • 0025775913 scopus 로고
    • Correlation between the compositional properties of human genes, codon usage, and amino-acid composition of proteins
    • D'ONOFRIO, G., D. MOUCHIROUD, B. AISSANI, C. GAUTIER and G. BERNARDI, 1991 Correlation between the compositional properties of human genes, codon usage, and amino-acid composition of proteins. J. Mol. Evol. 32: 504-510.
    • (1991) J. Mol. Evol. , vol.32 , pp. 504-510
    • D'Onofrio, G.1    Mouchiroud, D.2    Aissani, B.3    Gautier, C.4    Bernardi, G.5
  • 14
    • 0028247213 scopus 로고
    • HOVERGEN: A database of homologous vertebrate genes
    • DURET, L., D. MOUCHIROUD and M. GOUY, 1994 HOVERGEN: a database of homologous vertebrate genes. Nucleic Acids Res. 22: 2360-2365.
    • (1994) Nucleic Acids Res. , vol.22 , pp. 2360-2365
    • Duret, L.1    Mouchiroud, D.2    Gouy, M.3
  • 15
    • 0028963020 scopus 로고
    • Statistical analysis of vertebrate sequences reveals that long genes are scarce in GC-rich isochores
    • DURET, L., D. MOUCHIROUD and C. GAUTIER, 1995 Statistical analysis of vertebrate sequences reveals that long genes are scarce in GC-rich isochores. J. Mol. Evol. 40: 308-317.
    • (1995) J. Mol. Evol. , vol.40 , pp. 308-317
    • Duret, L.1    Mouchiroud, D.2    Gautier, C.3
  • 17
    • 0032434101 scopus 로고    scopus 로고
    • Problems with parsimony in sequences of biased base composition
    • EYRE-WALKER, A., 1998 Problems with parsimony in sequences of biased base composition. J. Mol. Evol. 47: 686-690.
    • (1998) J. Mol. Evol. , vol.47 , pp. 686-690
    • Eyre-Walker, A.1
  • 18
    • 0033018384 scopus 로고    scopus 로고
    • Evidence of selection on silent site base composition in mammals: Potential implications for the evolution of isochores and junk DNA
    • EYRE-WALKER, A., 1999 Evidence of selection on silent site base composition in mammals: potential implications for the evolution of isochores and junk DNA. Genetics 152: 675-683.
    • (1999) Genetics , vol.152 , pp. 675-683
    • Eyre-Walker, A.1
  • 20
    • 0033168465 scopus 로고    scopus 로고
    • Isochores result from mutation not selection
    • FRANCINO, M. P., and H. OCHMAN, 1999 Isochores result from mutation not selection. Nature 400: 30-31.
    • (1999) Nature , vol.400 , pp. 30-31
    • Francino, M.P.1    Ochman, H.2
  • 21
    • 0033858879 scopus 로고    scopus 로고
    • Cytosine deamination plays a primary role in the evolution of mammalian isochores
    • FRYXELL, K. J., and E. ZUCKERKANDL, 2000 Cytosine deamination plays a primary role in the evolution of mammalian isochores. Mol. Biol. Evol. 17: 1371-1383.
    • (2000) Mol. Biol. Evol. , vol.17 , pp. 1371-1383
    • Fryxell, K.J.1    Zuckerkandl, E.2
  • 22
    • 0034989085 scopus 로고    scopus 로고
    • Local rates of recombination are positively correlated with GC content in the human genome
    • FULLERTON, S. M., A. BERNARDO CARVALHO and A. G. CLARK, 2001 Local rates of recombination are positively correlated with GC content in the human genome. Mol. Biol. Evol. 18: 1139-1142.
    • (2001) Mol. Biol. Evol. , vol.18 , pp. 1139-1142
    • Fullerton, S.M.1    Bernardo Carvalho, A.2    Clark, A.G.3
  • 23
    • 0033938736 scopus 로고    scopus 로고
    • A new method for locating changes in a tree reveals distinct nucleofide polymorphism vs. divergence patterns in mouse mitochondrial control region
    • GALTIER, N., and P. BOURSOT, 2000 A new method for locating changes in a tree reveals distinct nucleofide polymorphism vs. divergence patterns in mouse mitochondrial control region. J. Mol. Evol. 50: 224-231.
    • (2000) J. Mol. Evol. , vol.50 , pp. 224-231
    • Galtier, N.1    Boursot, P.2
  • 24
    • 0031829758 scopus 로고    scopus 로고
    • Inferring pattern and process: Maximum-likelihood implementation of a nonhomogeneous model of DNA sequence evolution for phylogenetic analysis
    • GALTIER, N., and M. GOUY, 1998 Inferring pattern and process: maximum-likelihood implementation of a nonhomogeneous model of DNA sequence evolution for phylogenetic analysis. Mol. Biol. Evol. 15: 871-879.
    • (1998) Mol. Biol. Evol. , vol.15 , pp. 871-879
    • Galtier, N.1    Gouy, M.2
  • 25
    • 0031762570 scopus 로고    scopus 로고
    • Isochore evolution in mammals: A human-like ancestral structure
    • GALTIER, N., and D. MOUCHIROUD, 1998 Isochore evolution in mammals: a human-like ancestral structure. Genetics 150: 1577-1584.
    • (1998) Genetics , vol.150 , pp. 1577-1584
    • Galtier, N.1    Mouchiroud, D.2
  • 26
    • 0034766004 scopus 로고    scopus 로고
    • GC-content evolution in mammalian genomes: The biased gene conversion hypothesis
    • GALTIER, N., G. PIGANEAU, D. MOUCHIROUD and L. DURET, 2001 GC-content evolution in mammalian genomes: the biased gene conversion hypothesis. Genetics 159: 907-911.
    • (2001) Genetics , vol.159 , pp. 907-911
    • Galtier, N.1    Piganeau, G.2    Mouchiroud, D.3    Duret, L.4
  • 27
    • 0027978722 scopus 로고
    • Selection intensity for codon bias
    • HARTL, L. D., E. N. MORIYAMA and S. A. SAWYER, 1994 Selection intensity for codon bias. Genetics 138: 227-234.
    • (1994) Genetics , vol.138 , pp. 227-234
    • Hartl, L.D.1    Moriyama, E.N.2    Sawyer, S.A.3
  • 28
    • 0026890665 scopus 로고
    • Chromosome bands, their chromatin flavors, and their functional features
    • HOLMQUIST, G. P., 1992 Chromosome bands, their chromatin flavors, and their functional features. Am. J. Hum. Genet. 51: 17-37.
    • (1992) Am. J. Hum. Genet. , vol.51 , pp. 17-37
    • Holmquist, G.P.1
  • 29
    • 0032736988 scopus 로고    scopus 로고
    • Warm-blooded isochore structure in Nile crocodile and turtle
    • HUGHES, S., D. ZELUS and D. MOUCHIROUD, 1999 Warm-blooded isochore structure in Nile crocodile and turtle. Mol. Biol. Evol. 16: 1521-1527.
    • (1999) Mol. Biol. Evol. , vol.16 , pp. 1521-1527
    • Hughes, S.1    Zelus, D.2    Mouchiroud, D.3
  • 30
    • 0032509187 scopus 로고    scopus 로고
    • CpG doublets, CpG islands and Alu repeats in long human DNA sequences from different isochore families
    • JABBARI, K., and G. BERNARDI, 1998 CpG doublets, CpG islands and Alu repeats in long human DNA sequences from different isochore families. Gene 224: 123-128.
    • (1998) Gene , vol.224 , pp. 123-128
    • Jabbari, K.1    Bernardi, G.2
  • 31
    • 0030140391 scopus 로고    scopus 로고
    • Chromosome-size dependent control of meiotic recombination in humans
    • KABACK, D. B., 1996 Chromosome-size dependent control of meiotic recombination in humans. Nat. Genet. 13: 20-21.
    • (1996) Nat. Genet. , vol.13 , pp. 20-21
    • Kaback, D.B.1
  • 32
    • 0026575429 scopus 로고
    • Duplication-targeted DNA methylation and mutagenesis in the evolution of eukaryotic chromosomes
    • KRICKER, M. C., J. W. DRAKE and M. RADMAN, 1992 Duplication- targeted DNA methylation and mutagenesis in the evolution of eukaryotic chromosomes. Proc. Natl. Acad. Sci. USA 89: 1075- 1079.
    • (1992) Proc. Natl. Acad. Sci. USA , vol.89 , pp. 1075-1079
    • Kricker, M.C.1    Drake, J.W.2    Radman, M.3
  • 33
    • 2042437650 scopus 로고    scopus 로고
    • Initial sequencing and analysis of the human genome
    • LANDER, E. S., L. M. LINTON, B. BIRREN, C. NUSBAUM, M. C. ZODY et al., 2001 Initial sequencing and analysis of the human genome. Nature 409: 860-991.
    • (2001) Nature , vol.409 , pp. 860-991
    • Lander, E.S.1    Linton, L.M.2    Birren, B.3    Nusbaum, C.4    Zody, M.C.5
  • 34
    • 0027403961 scopus 로고
    • Unbiased estimation of the rates of synonymous and non-synonymous substitutions
    • LI, W. H., 1993 Unbiased estimation of the rates of synonymous and non-synonymous substitutions. J. Mol. Evol. 36: 96-99.
    • (1993) J. Mol. Evol. , vol.36 , pp. 96-99
    • Li, W.H.1
  • 35
    • 0031876009 scopus 로고    scopus 로고
    • Chicken micro-chromosomes are hyperacetylated, early replicating, and gene rich
    • McQUEEN, H. A., G. SIRIACO and A. P. BIRD, 1998 Chicken micro-chromosomes are hyperacetylated, early replicating, and gene rich. Genome Res. 8: 621-630.
    • (1998) Genome Res. , vol.8 , pp. 621-630
    • McQueen, H.A.1    Siriaco, G.2    Bird, A.P.3
  • 36
    • 0027303018 scopus 로고
    • Compositional properties of coding sequences and mammalian phylogeny
    • MOUCHIROUD, D., and G. BERNARDI, 1993 Compositional properties of coding sequences and mammalian phylogeny. J. Mol. Evol. 37: 109-116.
    • (1993) J. Mol. Evol. , vol.37 , pp. 109-116
    • Mouchiroud, D.1    Bernardi, G.2
  • 37
    • 0023971439 scopus 로고
    • High codon-usage changes in mammalian genes
    • MOUCHIROUD, D., and C. GAUTIER, 1988 High codon-usage changes in mammalian genes. Mol. Biol. Evol. 5: 192-194.
    • (1988) Mol. Biol. Evol. , vol.5 , pp. 192-194
    • Mouchiroud, D.1    Gautier, C.2
  • 39
    • 0021077332 scopus 로고
    • Evolution of a finite population under gene conversion
    • NAGYLAKI, T., 1983 Evolution of a finite population under gene conversion. Proc. Natl. Acad. Sci. USA 80: 6278-6281.
    • (1983) Proc. Natl. Acad. Sci. USA , vol.80 , pp. 6278-6281
    • Nagylaki, T.1
  • 40
    • 0034520771 scopus 로고    scopus 로고
    • Assessment of compositional heterogeneity within and between eukaryotic genomes
    • NEKRUTENKO, A., and W. H. LI, 2000 Assessment of compositional heterogeneity within and between eukaryotic genomes. Genome. Res. 10: 1986-1995.
    • (2000) Genome. Res. , vol.10 , pp. 1986-1995
    • Nekrutenko, A.1    Li, W.H.2
  • 41
    • 0000360362 scopus 로고
    • Unequal base frequencies and the estimation of substitution rate
    • PERNA, N. T., and T. D. KOCHER, 1995 Unequal base frequencies and the estimation of substitution rate. Mol. Biol. Evol. 12: 359-361.
    • (1995) Mol. Biol. Evol. , vol.12 , pp. 359-361
    • Perna, N.T.1    Kocher, T.D.2
  • 42
    • 0033539159 scopus 로고    scopus 로고
    • Evolutionary rate of a gene affected by chromosomal position
    • PERRY, J., and A. ASHWORTH, 1999 Evolutionary rate of a gene affected by chromosomal position. Curr. Biol. 9: 987-989.
    • (1999) Curr. Biol. , vol.9 , pp. 987-989
    • Perry, J.1    Ashworth, A.2
  • 43
    • 0036133007 scopus 로고    scopus 로고
    • Expected relationship between the silent substitution rate and the GC content: Implications for the evolution of isochores
    • PIGANEAU, G., D. MOUCHIROUD, L. DURET and C. GAUTIER, 2002 Expected relationship between the silent substitution rate and the GC content: implications for the evolution of isochores. J. Mol. Evol. 54: 129-133.
    • (2002) J. Mol. Evol. , vol.54 , pp. 129-133
    • Piganeau, G.1    Mouchiroud, D.2    Duret, L.3    Gautier, C.4
  • 45
    • 0026460082 scopus 로고
    • Population genetics of polymorphism and divergence
    • SAWYER, S. A., and D. L. HARTL, 1992 Population genetics of polymorphism and divergence. Genetics 132: 1161-1176.
    • (1992) Genetics , vol.132 , pp. 1161-1176
    • Sawyer, S.A.1    Hartl, D.L.2
  • 46
    • 0343320348 scopus 로고    scopus 로고
    • Comparative painting reveals strong chromosome homology over 80 million years of bird evolution
    • SHETTY, S., D. K. GRIFFIN and J. A. GRAVES, 1999 Comparative painting reveals strong chromosome homology over 80 million years of bird evolution. Chromosome Res. 7: 289-295.
    • (1999) Chromosome Res. , vol.7 , pp. 289-295
    • Shetty, S.1    Griffin, D.K.2    Graves, J.A.3
  • 47
    • 0032784908 scopus 로고    scopus 로고
    • Interspersed repeats and other mementos of transposable elements in mammalian genomes
    • SMIT, A. F., 1999 Interspersed repeats and other mementos of transposable elements in mammalian genomes. Curr. Opin. Genet. Dev. 9: 657-663.
    • (1999) Curr. Opin. Genet. Dev. , vol.9 , pp. 657-663
    • Smit, A.F.1
  • 48
    • 0034993993 scopus 로고    scopus 로고
    • Synonymous codon bias is not caused by mutation bias in G+C-rich genes in humans
    • SMITH, N. G., and A. EYRE-WALKER, 2001 Synonymous codon bias is not caused by mutation bias in G+C-rich genes in humans. Mol. Biol. Evol. 18: 982-996.
    • (2001) Mol. Biol. Evol. , vol.18 , pp. 982-996
    • Smith, N.G.1    Eyre-Walker, A.2
  • 49
    • 0025129834 scopus 로고
    • DNA mismatch repair in Xenopus egg extracts: Repair efficiency and DNA repair synthesis for all single base-pair mismatches
    • VARLET, I., M. RADMAN and P. BROOKS, 1990 DNA mismatch repair in Xenopus egg extracts: repair efficiency and DNA repair synthesis for all single base-pair mismatches. Proc. Natl. Acad. Sci. USA 87: 7883-7887.
    • (1990) Proc. Natl. Acad. Sci. USA , vol.87 , pp. 7883-7887
    • Varlet, I.1    Radman, M.2    Brooks, P.3
  • 51
    • 0024497416 scopus 로고
    • Mutation rates differ among regions of the mammalian genome
    • WOLFE, K. H., P. M. SHARP and W. H. LI, 1989 Mutation rates differ among regions of the mammalian genome. Nature 337: 283-285.
    • (1989) Nature , vol.337 , pp. 283-285
    • Wolfe, K.H.1    Sharp, P.M.2    Li, W.H.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.