Compositional Patterns in Vertebrate Genomes: Conservation and Change in Evolution

  • Giorgio Bernardi
  • Dominique Mouchiroud
  • Christian Gautier
  • Giacomo Bernardi
Part of the NATO ASI Series book series (NATO ASI, volume 169)

Abstract

Three approaches have recently provided new insights into the organization and evolution of the nuclear genomes of vertebrates. They are all based on the compositional properties of genome segments ranging in size from about 1 Kb, for coding sequences, to 100 Kb, for DNA fragments. The rationale for these approaches is the fact that vertebrate genomes are mosaics of isochores, which are evolutionarily relevant structures (see the following paragraph).

Keywords

Codon Serine Lysine Arginine Alanine 

Preview

Unable to display preview. Download preview PDF.

Unable to display preview. Download preview PDF.

References

  1. Argos, P., Rossmann, M.G., Grau, U.M., Zuber, A., Franck, G. and Tratschin, J.D., 1979, Thermal stability and protein structure, Biochemistry, 18:5698.PubMedCrossRefGoogle Scholar
  2. Bernardi, G., 1985, The organization of the vertebrate genome and the problem of the CpG shortage, in: “Biochemistry and Biology of DNA methylation”, G.L. Cantoni and A. Razin, eds., p. 3, Alan Liss, New York.Google Scholar
  3. Bernardi, G. and Bernardi, G., 1985, Codon usage and genome composition, J. Mol. Evol., 22:363.PubMedCrossRefGoogle Scholar
  4. Bernardi, G., Mouchiroud, D., Gautier, C. and Bernardi, G., 1988, Compositional patterns in vertebrate genomes: conservation and change in evolution, J. Mol. Evol., in press.Google Scholar
  5. Bernardi, G., Olofsson, B., Filipski, J., Zerial, M., Salinas, J., Cuny G., Meunier-Rotival, M. and Rodier, F., 1985, The mosaic genome of warm-blooded vertebrates, Science, 228:953.PubMedCrossRefGoogle Scholar
  6. Bernardi, G. and Bernardi, G., 1986, Compositional constraints and genome evolution, J. Mol. Evol., 24:1.PubMedCrossRefGoogle Scholar
  7. Bird, A.P., 1987, CpG islands as gene markers in the vertebrate nucleus, Trends in Genetics, 3:342.CrossRefGoogle Scholar
  8. Kimura, M., 1968, Evolutionary rate at the molecular level, Nature, 217:624.PubMedCrossRefGoogle Scholar
  9. Kimura, M., 1983, The neutral theory of molecular evolution, Cambridge University Press, Cambridge, England.CrossRefGoogle Scholar
  10. Medrano, L., Bernardi, G., Couturier, J., Dutrillaux, B. and Bernardi, G., 1988, Chromosome banding and genome compartmentalization in fishes, Chromosoma, 96:178.CrossRefGoogle Scholar
  11. Mouchiroud, D., Fichant, G. and Bernardi, G. 1987, Compositional compartmentalization and gene composition in the genomes of vertebrates, J. Mol. Evol., 26:198.PubMedCrossRefGoogle Scholar
  12. Mouchiroud, D. and Gautier, C., 1988, High codon-usage changes in mammalian genes, Mol. Biol. Evol., 5:192.PubMedGoogle Scholar
  13. Mouchiroud, D., Gautier, C. and Bernardi, G., 1988, The compositionaldistribution of coding sequences and DNA molecules in man and murids, J. Mol. Evol., in press.Google Scholar
  14. Perrin, P. and Bernardi, G. 1987, Directional fixation of mutations in vertebrate evolution, J. Mol. Evol., 26:301.PubMedCrossRefGoogle Scholar
  15. Salinas, J., Zerial, M., Filipski, J. and Bernardi, G., 1986, Gene distribution and nucleotide sequence organization of the mouse genome, Eur. J. Biochem., 160:469.PubMedCrossRefGoogle Scholar
  16. Wada, A. and Suyama, A. 1986, Local stability of DNA and RNA secondary structure and its relation to biological function, Prog. Biophys. Mol. Biol., 47:113.PubMedCrossRefGoogle Scholar
  17. Zerial, M., Salinas, J., Filipski, J. and Bernardi, G., 1986, Gene distribution and nucleotide sequence organization in the human genome, Eur. J. Biochem., 160:479.PubMedCrossRefGoogle Scholar
  18. Zuckerkandl, E. 1986, Polite DNA: functional density and functional compatibility in genomes, J. Mol. Evol., 24:12.PubMedCrossRefGoogle Scholar

Copyright information

© Plenum Press, New York 1989

Authors and Affiliations

  • Giorgio Bernardi
    • 1
  • Dominique Mouchiroud
    • 2
  • Christian Gautier
    • 2
  • Giacomo Bernardi
    • 1
  1. 1.Laboratoire de Génétique MoléculaireInstitut Jacques MonodParisFrance
  2. 2.Laboratoire de Biométrie, U.A. 243Université Claude Bernard Lyon ILyonFrance

Personalised recommendations