Different hydrophobicities of orthologous proteins from Xenopus and human

Gene

Volumn 238, Issue 1, 1999, Pages 15-21

  Cruveiller, S ^a,b   Jabbari, K ^b   D'Onofrio, G ^a   Bernardi, G ^a,b  

^a Laboratorio di Evoluzione Molecolare   (Italy)

^b INSTITUT JACQUES MONOD   (France)

Author keywords

Isochores; Mutational bias; Natural selection

Indexed keywords

AMINO ACID; PROTEIN;

ARTICLE; CODON; CONTROLLED STUDY; GENOME; HUMAN; HYDROPHOBICITY; MOLECULAR EVOLUTION; NONHUMAN; PRIORITY JOURNAL; PROTEIN STRUCTURE, FUNCTION AND VARIABILITY; VERTEBRATE; XENOPUS;

AMINO ACID SEQUENCE; ANIMALS; CATTLE; HUMANS; MOLECULAR SEQUENCE DATA; PROTEINS; WATER; XENOPUS;

AMPHIBIA; REPTILIA; VERTEBRATA;

EID: 0032865867     PISSN: 03781119     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0378-1119(99)00259-0     Document Type: Article

References (30)

1. Aïssani B., Bernardi G. CpG islands: features and distribution in the genome of vertebrates. Gene. 106:1991;173-183.
2. Bernardi G., Bernardi G. Compositional constraints and genome evolution. J. Mol. Evol. 24:1986;1-11.
3. Bernardi G., Mouchiroud D., Gautier C., Bernardi G. Compositional patterns in vertebrate genomes: conservation and change in evolution. J. Mol. Evol. 28:1988;7-18.
4. Bernardi G. The isochore organization of the human genome. Annu. Rev. Genet. 23:1989;637-661.
5. Bernardi G., Bernardi G. Compositional patterns in the nuclear genomes of cold-blooded vertebrates. J. Mol. Evol. 31:1990;265-281.
6. Bernardi G., Bernardi G. Compositional transitions in the nuclear genomes of cold-blooded vertebrates. J. Mol. Evol. 31:1990;282-293.
7. Bernardi G., Bernardi G. Compositional properties of nuclear genes from cold-blooded vertebrates. J. Mol. Evol. 31:1991;57-67.
8. Bernardi G., Mouchiroud D., Gautier C. Silent substitutions in mammalian genomes and their evolutionary implications. J. Mol. Evol. 37:1993;583-589.
9. Bernardi G. The human genome: organization and evolutionary history. Annu. Rev. Genet. 29:1995;445-476.
10. Bernardi G., Hughes S., Mouchiroud D. The major compositional transitions in the vertebrate genome. J. Mol. Evol. 44:1997;S44-S51.
11. Chiusano M.L., D'Onofrio G., Alvarez-Valin F., Jabbari K., Bernardi G. Correlations of nucleotide substitution rates and base composition of mammalian coding sequences with protein structure. Gene. 238:1999;23-31.
12. D'Onofrio G., Mouchiroud D., Aïssani B., Gautier 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.
13. D'Onofrio G., Jabbari K., Musto H., Alvarez-Valin F., Cruveiller S., Bernardi G. Evolutionary genomics of vertebrates and its implications. Caporale L.H., Arber W. Molecular Strategies in Biological Evolution. 1999;1-14 Ann. NY Acad. Sci. New York.
14. D'Onofrio G., Jabbari K., Musto H., Bernardi G. The correlation of protein hydropathy with the composition of coding sequences. Gene. 1999;. in press.
15. Duret L., Mouchiroud D., Gouy M. HOVERGEN: Homologous Vertebrate Genes data base. Nucleic Acids Res. 22:1994;2360-2363.
16. Felsenstein J. Phylogeny Inference Package (Version 3.527). Cladistics. 5:1989;164-166.
17. Genicot S., Rentier-Delrue F., Edwards D., VanBeeumen J., Gerday C. Trypsin and trypsinogen from an Antarctic fish: molecular basis of cold adaptation. Biochim. Biophys. Acta. 1298:1996;45-57.
18. 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.
19. Hudson A.P., Cuny G., Cortadas J., Haschemeyer A.E.V., Bernardi G. An analysis of fish genomes by density gradient centrifugation. Eur. J. Biochem. 112:1980;203-210.
20. Kimura M. The Neutral Theory of Molecular Evolution. 1983;Cambridge University Press, Cambridge.
21. Kyte J., Doolittle R.F. A simple method for displaying the hydropathic character of a protein. J. Mol. Biol. 157:1982;105-132.
22. Mouchiroud D., Bernardi G. Compositional properties of coding sequences and mammalian phylogeny. J. Mol. Evol. 37:1993;109-116.
23. Mouchiroud D., Gautier C., Bernardi G. Frequencies of synonymous substitutions in mammals are gene-specific and correlated with frequencies of non-synonymous substitutions. J. Mol. Evol. 40:1995;107-113.
24. Pace C.N., Shirley B.A., McNutt M., Gajiwala K. Forces contributing to the conformational stability of proteins. FASEB J. 10:1996;75-83.
25. Perrin P., Bernardi G. Directional fixation of mutations in vertebrate evolution. J. Mol. Evol. 26:1987;301-310.
26. Pizon V., Cuny G., Bernardi G. Nucleotide sequence organization in the very small genome of a tetraodontid fish, Arothron diadematus. Eur. J. Biochem. 140:1984;25-30.
27. Sueoka N. Directional mutation pressure and neutral molecular evolution. Proc. Natl. Acad. Sci. USA. 85:1988;2653-2657.
28. Sueoka N. Directional mutation pressure and molecular evolution: equilibria and asymmetric phylogenetic branching. J. Mol. Evol. 34:1992;95-114.
29. Thiery J.P., Macaya G., Bernardi G. An analysis of eukaryotic genomes by density gradient centrifugation. J. Mol. Biol. 108:1976;219-235.
30. Thompson J.D., Higgins D.G., Gibson T.J. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 22:1994;4673-4680.