Abstract
With the help of the empirical mutation table for nucleotides in the Borrelia burgdorferi genome we have performed Monte Carlo simulation of the pure mutation pressure experienced by the genes of the genome. We have examined the divergence of the mutated genes from the ancestral ones and we have constructed MPM1 matrix (Mutation Probability Matrix) of the substitution rates between amino acids of the diverging genes. The results have been compared to mutation data matrix PAM1 PET91 representing mutation and selection data of 16130 homologous genes od different organisms. We have found that the effective survival time of amino acids in organisms follows a power law with respect to frequency of their occurrence in genes. This makes possible to find the effect of the pure mutational pressure and the selection on the amino acid composition of genes. The results are universal in the sense that the survival time of amino acids calculated from the higher order PAMk matrices (k > 1) follows the same power law as in the case of PAM1 matrices.
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Keywords
- Substitution Rate
- Borrelia Burgdorferi
- Mutational Pressure
- Nucleotide Substitution Rate
- Amino Acid Property
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References
Dayhoff, M.O., Schwartz, R.M., and Orcutt, B.C.: A Model of Evolutionary Change in Proteins. In: Atlas of Protein Sequence and Structure, Vol. 5 Suppl. 3 (1978) 345–352
Jones, D.T., Taylor, W.R., and Thornton, J.M.: The rapid generation of mutation data matrices from protein sequences. In: CABIOS, Vol. 8 no. 3, (1992) 275–282
Kowalczuk, M., Mackiewicz, P., Szczepanik, D., Nowicka, A., Dudkiewicz, M., Dudek, M.R., and Cebrat, S.: Multiple base substitution corrections in DNA sequence evolution. Int. J. Mod. Phys. C 12 (2001) 1043–1053
Mackiewicz, P., Kowalczuk, M., Mackiewicz, D., Nowicka, A., Dudkiewicz, M., KLaszkiewicz, A., Dudek, M.R., Cebrat, S.: Replication associated mutational pressure generating long-range correlation in DNA. Physica A 314 (2002) 646–654
Kowalczuk, M., Mackiewicz, P., Mackiewicz, D., Nowicka, A., Dudkiewicz, M., Dudek, M.R., and Cebrat, S: High correlation between the turnover of nucleotides under mutational pressure and the DNA composition. BMC Evolutionary Biology 1 (2001) (1):13
Cebrat, S., Dudek, M.R., Gierlik, A., Kowalczuk, M., Mackiewicz, P.: Effect of replication on the third base of codons. Physica A 265 (1999) 78–84
Kimura, M.: The Neutral Theory of Molecular Evolution, Cambridge University Press, Cambridge (1983)
Xia, X., Li, W-H.: What Amino Acid Properties Affect Protein Evolution. J. Mol. Evol. 47 (1998) 557–564
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© 2003 Springer-Verlag Berlin Heidelberg
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Nowicka, A. et al. (2003). Correlation between Mutation Pressure, Selection Pressure, and Occurrence of Amino Acids. In: Sloot, P.M.A., Abramson, D., Bogdanov, A.V., Gorbachev, Y.E., Dongarra, J.J., Zomaya, A.Y. (eds) Computational Science — ICCS 2003. ICCS 2003. Lecture Notes in Computer Science, vol 2658. Springer, Berlin, Heidelberg. https://doi.org/10.1007/3-540-44862-4_70
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DOI: https://doi.org/10.1007/3-540-44862-4_70
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