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Volumn 315, Issue 4, 2004, Pages 1097-1103

Correlations between nucleotide frequencies and amino acid composition in 115 bacterial species

Author keywords

Amino acid composition; Dinucleotide; Mononucleotide; Selection pressure

Indexed keywords

AMINO ACID; ARGININE; ASPARTIC ACID; CYSTEINE; DINUCLEOTIDE; GLUTAMIC ACID; GLYCINE; NUCLEOTIDE; SERINE; VALINE;

EID: 1342345235     PISSN: 0006291X     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.bbrc.2004.01.129     Document Type: Article
Times cited : (21)

References (28)
  • 1
    • 0001300503 scopus 로고
    • Correlation between base composition of deoxyribonucleic acid and amino acid composition and protein
    • Sueoka N. Correlation between base composition of deoxyribonucleic acid and amino acid composition and protein. Proc. Natl. Acad. Sci. USA. 47:1961;1141-1149.
    • (1961) Proc. Natl. Acad. Sci. USA. , vol.47 , pp. 1141-1149
    • Sueoka, N.1
  • 2
    • 0022914759 scopus 로고
    • Compositional constraints and genome evolution
    • Bernardi G., Bernardi G. Compositional constraints and genome evolution. J. Mol. Evol. 24:1986;1-11.
    • (1986) J. Mol. Evol. , vol.24 , pp. 1-11
    • Bernardi, G.1    Bernardi, G.2
  • 3
    • 0023689082 scopus 로고
    • The effects of guanine and cytosine variation on dinucleotide frequency and amino acid composition in the human genome
    • Hanai R., Wada A. The effects of guanine and cytosine variation on dinucleotide frequency and amino acid composition in the human genome. J. Mol. Evol. 27:1988;321-325.
    • (1988) J. Mol. Evol. , vol.27 , pp. 321-325
    • Hanai, R.1    Wada, A.2
  • 4
    • 0025775913 scopus 로고
    • Correlations between the compositional properties of human genes, codon usage, and amino acid composition of proteins
    • D'Onofrio G., Mouchiroud D., Aissani B., Gauter C., Bernardi G. Correlations between the compositional properties of human genes, codon usage, and amino acid composition of proteins. J. Mol. Evol. 32:1991;504-510.
    • (1991) J. Mol. Evol. , vol.32 , pp. 504-510
    • D'Onofrio, G.1    Mouchiroud, D.2    Aissani, B.3    Gauter, C.4    Bernardi, G.5
  • 5
    • 0026702218 scopus 로고
    • Compliance of genetic code with base-composition deflecting pressure
    • Wada A. Compliance of genetic code with base-composition deflecting pressure. Adv. Biophys. 28:1992;135-158.
    • (1992) Adv. Biophys. , vol.28 , pp. 135-158
    • Wada, A.1
  • 6
    • 0027461794 scopus 로고
    • Relationship between G + C in silent sites of codons and amino acid composition of human proteins
    • Collins D.W., Jukes T.H. Relationship between G. + C in silent sites of codons and amino acid composition of human proteins J. Mol. Evol. 36:1993;201-213.
    • (1993) J. Mol. Evol. , vol.36 , pp. 201-213
    • Collins, D.W.1    Jukes, T.H.2
  • 7
    • 0028948605 scopus 로고
    • Correlation between codon usage, regional genomic nucleotide composition, and amino acid composition in the cytochrome P-450 gene superfamily
    • Porter T.D. Correlation between codon usage, regional genomic nucleotide composition, and amino acid composition in the cytochrome P-450 gene superfamily. Biochim. Biophys. Acta. 1261:1995;394-400.
    • (1995) Biochim. Biophys. Acta , vol.1261 , pp. 394-400
    • Porter, T.D.1
  • 8
    • 0029587471 scopus 로고
    • The human genome: Organization and evolutionary history
    • Bernardi G. The human genome: organization and evolutionary history. Annu. Rev. Genet. 29:1995;445-476.
    • (1995) Annu. Rev. Genet. , vol.29 , pp. 445-476
    • Bernardi, G.1
  • 9
    • 0031267538 scopus 로고    scopus 로고
    • Compositional constraints in the extremely GC-poor genome of Plasmodium falciparum
    • Musto H., Caccio S., Rodriguez-Maseda H., Bernardi G. Compositional constraints in the extremely GC-poor genome of Plasmodium falciparum. Mem. Inst. Oswaldo Cruz. 92:1997;835-841.
    • (1997) Mem. Inst. Oswaldo Cruz , vol.92 , pp. 835-841
    • Musto, H.1    Caccio, S.2    Rodriguez-Maseda, H.3    Bernardi, G.4
  • 10
    • 0031593216 scopus 로고    scopus 로고
    • Influence of genomic G + C content on average amino-acid composition of proteins from 59 bacterial species
    • Lobry J.R. Influence of genomic G. + C content on average amino-acid composition of proteins from 59 bacterial species Gene. 205:1997;309-316.
    • (1997) Gene , vol.205 , pp. 309-316
    • Lobry, J.R.1
  • 11
    • 0031020582 scopus 로고    scopus 로고
    • Nucleotide composition bias affects amino acid content in proteins coded by animal mitochondria
    • Foster P.G., Jermiin L.S., Hickey D.A. Nucleotide composition bias affects amino acid content in proteins coded by animal mitochondria. J. Mol. Evol. 44:1997;282-288.
    • (1997) J. Mol. Evol. , vol.44 , pp. 282-288
    • Foster, P.G.1    Jermiin, L.S.2    Hickey, D.A.3
  • 12
    • 0032700253 scopus 로고    scopus 로고
    • The role of the codon first letter in the relationship between genomic GC content and protein amino acid composition
    • Wilquet V., Van de Casteele M. The role of the codon first letter in the relationship between genomic GC content and protein amino acid composition. Res. Microbiol. 150:1999;21-32.
    • (1999) Res. Microbiol. , vol.150 , pp. 21-32
    • Wilquet, V.1    Van De Casteele, M.2
  • 13
    • 0033745103 scopus 로고    scopus 로고
    • Nucleotide bias causes a genomewide bias in the amino acid composition of proteins
    • Singer G.A.C., Hickey D.A. Nucleotide bias causes a genomewide bias in the amino acid composition of proteins. Mol. Biol. Evol. 17:2000;1581-1588.
    • (2000) Mol. Biol. Evol. , vol.17 , pp. 1581-1588
    • Singer, G.A.C.1    Hickey, D.A.2
  • 14
    • 0033921447 scopus 로고    scopus 로고
    • Gene expression, amino acid conservation, and hydrophobicity are the main factors shaping codon preferences in Mycobacterium tuberculosis and Mycobacterium leprae
    • de Miranda A.B., Alvarez-Valin F., Jabbari K., Degrave W.M., Bernardi G. Gene expression, amino acid conservation, and hydrophobicity are the main factors shaping codon preferences in Mycobacterium tuberculosis and Mycobacterium leprae. J. Mol. Evol. 50:2000;45-55.
    • (2000) J. Mol. Evol. , vol.50 , pp. 45-55
    • De Miranda, A.B.1    Alvarez-Valin, F.2    Jabbari, K.3    Degrave, W.M.4    Bernardi, G.5
  • 15
    • 0035220937 scopus 로고    scopus 로고
    • A simple model based on mutation and selection explains trends in codon and amino-acid usage and GC composition within and across genomes
    • research0010.1-0010.13
    • Knight R.D., Freeland S.J., Landweber L.F. A simple model based on mutation and selection explains trends in codon and amino-acid usage and GC composition within and across genomes. Genome Biol. 2:2001;. research0010.1-0010.13.
    • (2001) Genome Biol. , vol.2
    • Knight, R.D.1    Freeland, S.J.2    Landweber, L.F.3
  • 16
    • 0035312933 scopus 로고    scopus 로고
    • Identification of thermophilic species by the amino acid compositions deduced from their genomes
    • Kreil D.P., Ouzounis C.A. Identification of thermophilic species by the amino acid compositions deduced from their genomes. Nucleic Acids Res. 29:2001;1608-1615.
    • (2001) Nucleic Acids Res. , vol.29 , pp. 1608-1615
    • Kreil, D.P.1    Ouzounis, C.A.2
  • 17
    • 0033982936 scopus 로고    scopus 로고
    • KEGG: Kyoto encyclopedia of genes and genomes
    • Kanehisa M., Goto S. KEGG: kyoto encyclopedia of genes and genomes. Nucleic Acids Res. 28:2000;27-30.
    • (2000) Nucleic Acids Res. , vol.28 , pp. 27-30
    • Kanehisa, M.1    Goto, S.2
  • 18
    • 0016842629 scopus 로고
    • Amino acid composition of proteins: Selection against the genetic code
    • Jukes T.H., Holmquist R., Moise H. Amino acid composition of proteins: selection against the genetic code. Science. 189:1975;50-51.
    • (1975) Science , vol.189 , pp. 50-51
    • Jukes, T.H.1    Holmquist, R.2    Moise, H.3
  • 20
    • 0029060923 scopus 로고
    • Dinucleotide relative abundance extremes: A genomic signature
    • Karlin S., Burge C. Dinucleotide relative abundance extremes: a genomic signature. Trends Genet. 11:1995;283-290.
    • (1995) Trends Genet. , vol.11 , pp. 283-290
    • Karlin, S.1    Burge, C.2
  • 21
    • 0019322245 scopus 로고
    • DNA methylation and the frequency of CpG in animal DNA
    • Bird A.P. DNA methylation and the frequency of CpG in animal DNA. Nucleic Acids Res. 8:1980;1499-1504.
    • (1980) Nucleic Acids Res. , vol.8 , pp. 1499-1504
    • Bird, A.P.1
  • 22
    • 0034284069 scopus 로고    scopus 로고
    • Intercodon dinucleotides affect codon choice in plant genes
    • Amicis F.D., Marchetti S. Intercodon dinucleotides affect codon choice in plant genes. Nucleic Acids Res. 28:2000;3339-3345.
    • (2000) Nucleic Acids Res. , vol.28 , pp. 3339-3345
    • Amicis, F.D.1    Marchetti, S.2
  • 23
    • 0035049521 scopus 로고    scopus 로고
    • Genome-scale compositional comparisons in eukaryotes
    • Gentles A.F., Karlin S. Genome-scale compositional comparisons in eukaryotes. Genome Res. 11:2001;540-546.
    • (2001) Genome Res. , vol.11 , pp. 540-546
    • Gentles, A.F.1    Karlin, S.2
  • 24
    • 0036567632 scopus 로고    scopus 로고
    • Searching for RNA genes using base-composition statistics
    • Schattner P. Searching for RNA genes using base-composition statistics. Nucleic Acids Res. 30:2002;2076-2082.
    • (2002) Nucleic Acids Res. , vol.30 , pp. 2076-2082
    • Schattner, P.1
  • 25
    • 0036606843 scopus 로고    scopus 로고
    • Comprehensive analysis of amino acid and nucleotide composition in eukaryotic genomes, comparing genes and pseudogenes
    • Echols N., Harrison P., Balasubramanian S., Luscombe N.M., Bertone P., Zhang Z., Gerstein M. Comprehensive analysis of amino acid and nucleotide composition in eukaryotic genomes, comparing genes and pseudogenes. Nucleic Acids Res. 30:2002;2515-2523.
    • (2002) Nucleic Acids Res. , vol.30 , pp. 2515-2523
    • Echols, N.1    Harrison, P.2    Balasubramanian, S.3    Luscombe, N.M.4    Bertone, P.5    Zhang, Z.6    Gerstein, M.7
  • 26
    • 7344242178 scopus 로고    scopus 로고
    • Mutation pressure, natural selection, and the evolution of base composition in Drosophila
    • Akashi H., Kliman R.M., Eyre-Walker A. Mutation pressure, natural selection, and the evolution of base composition in Drosophila. Genetica. 102:1998;49-60.
    • (1998) Genetica , vol.102 , pp. 49-60
    • Akashi, H.1    Kliman, R.M.2    Eyre-Walker, A.3
  • 27
    • 0342614926 scopus 로고    scopus 로고
    • Codon usage tabulated from international DNA sequence databases: Status for the year 2000
    • Nakamura Y., Gojobori T., Ikemura T. Codon usage tabulated from international DNA sequence databases: status for the year 2000. Nucleic Acids Res. 28:2000;292.
    • (2000) Nucleic Acids Res. , vol.28 , pp. 292
    • Nakamura, Y.1    Gojobori, T.2    Ikemura, T.3
  • 28
    • 0035923604 scopus 로고    scopus 로고
    • Degeneracy and complexity in biological systems
    • Edelman G.M., Gally J. Degeneracy and complexity in biological systems. Proc. Natl. Acad. Sci. USA. 98:2001;13763-13768.
    • (2001) Proc. Natl. Acad. Sci. USA , vol.98 , pp. 13763-13768
    • Edelman, G.M.1    Gally, J.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.