Isochores, GC3 and mutation biases in the human genome

Gene

Volumn 300, Issue 1-2, 2002, Pages 161-168

  Alvarez Valin, Fernando ^a   Lamolle, Guillermo ^a   Bernardi, Giorgio ^b  

^a FACULTAD DE CIENCIAS   (Uruguay)

^b STAZIONE ZOOLOGICA ANTON DOHRN   (Italy)

Author keywords

Compositional evolution; Genomics

Indexed keywords

CONFERENCE PAPER; DATA BASE; GENE MUTATION; GENETIC ANALYSIS; GENETIC ASSOCIATION; GENETIC DISORDER; GENETIC PARAMETERS; ISOCHORE; PRIORITY JOURNAL; ARTICLE; CHEMISTRY; CODON; CPG ISLAND; DNA BASE COMPOSITION; GC RICH SEQUENCE; GENETICS; GENOME; HUMAN; MUTATION; NUCLEIC ACID DATABASE;

PHENYLALANINE 4 MONOOXYGENASE; PROTEIN P53;

BASE COMPOSITION; CODON; CPG ISLANDS; DATABASES, NUCLEIC ACID; GC RICH SEQUENCE; GENOME, HUMAN; HUMANS; ISOCHORES; MUTATION; PHENYLALANINE HYDROXYLASE; TUMOR SUPPRESSOR PROTEIN P53;

EID: 0037201925     PISSN: 03781119     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0378-1119(02)01043-0     Document Type: Conference Paper

References (21)

1. Bernardi G. Isochores and the evolutionary genomics of vertebrates. Gene. 241:2000;3-17.
2. Bernardi G., Bernardi G. Compositional constraints and genome evolution. J. Mol. Evol. 24:1986;1-11.
3. Bernardi G., Olofsson B., Filipski J., Zerial M., Salinas J., Cuny G., Meunier-Rotival M., Rodier F. The mosaic genome of warm-blooded vertebrates. Science. 228:1985;953-958.
4. Cariello N.F., Skopek T.R. In vivo mutations at the human hprt locus. Trends Genet. 9:1993;322-326.
5. Cuny G., Soriano P., Macaya G., Bernardi G. The major components of the mouse and human genomes: preparation, basic properties and compositional heterogeneity. Eur. J. Biochem. 115:1981;227-233.
6. Eyre-Walker A. Evidence of selection on silent site base composition in mammals: potential implications for the evolution of isochores and junk DNA. Genetics. 152:1999;675-683.
7. Eyre-Walker A., Hurst L. The evolution of isochores. Nat. Rev. Genet. 2:2001;549-555.
8. Filipski J. Correlation between molecular clock ticking, codon usage, fidelity of DNA repair, chromosome banding and chromatin compactness in germline cells. FEBS Lett. 217:1987;184-186.
9. + density gradient centrifugation. J. Mol. Biol. 80:1973;177-197.
10. Francino P., Ochman H. Isochores result from mutation not selection. Nature. 400:1999;30-31.
11. Gojobori T., Li W.-H., Graur D. Patterns of nucleotide substitution in pseudogenes and functional genes. J. Mol. Evol. 18:1982;360-369.
12. Krawczak M., Cooper D.N. Mutational processes in pathology and evolution. Jackson M., Strachan T., Dover G. Human Genome Evolution. 1996;1-33 BIOS Scientific, Oxford.
13. Kunkel T.A., Alexander P.S. The base substitution fidelity of eucaryotic DNA polymerases. Mispairing frequencies, site preferences, insertion preferences, and base substitution by dislocation. J. Biol. Chem. 261:(1):1986;160-166.
14. Macaya G., Thiery J.P., Bernardi G. An approach to the organization of eukaryotic genomes at a macromolecular level. J. Mol. Biol. 108:1976;237-254.
15. Piganeau G., Mouchiroud D., Duret L., Gautier C. Expected relationship between the silent substitution rate and the GC content: implications for the evolution of isochores. J. Mol. Evol. 54:2002;129-133.
16. Smith N.G., Eyre-Walker A. Synonymous codon bias is not caused by mutation bias in G+C-rich genes in humans. Mol. Biol. Evol. 18:2001;982-986.
17. Sueoka N. Directional mutation pressure and neutral molecular evolution. Proc. Natl. Acad. Sci. USA. 85:1988;2653-2657.
18. Sueoka N. Directional mutation pressure, selective constraints, and genetic equilibria. J. Mol. Evol. 34:1992;95-114.
19. Initial sequencing and analysis of the human genome. Nature. 409:2001;860-921.
20. Van Camp G., Fransen E., Vits L., Raes G., Willems P.J. A locus-specific mutation database for the neural cell adhesion molecule L1CAM (Xq28). Hum. Mutat. 8:1996;391.
21. Wolfe K.H., Sharp P.M., Li W.H. Mutation rates differ among regions of the mammalian genome. Nature. 337:1989;283-285.