A new method for calculating evolutionary substitution rates
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In this paper we present a new method for analysing molecular evolution in homologous genes based on a general stationary Markov process. The elaborate statistical analysis necessary to apply the method effectively has been performed using Monte Carlo technqiues. We have applied our method to the silent third position of the codon of the five mitochondrial genes coding for identified proteins of four mammalian species (rat, mouse, cow and man). We found that the method applies satisfactorily to the three former species, while the last appears to be outside the scope of the present approach. The method allows one to calculate the evolutionarily effective silent substitution rate (vs) for mitochondrial genes, which in the species mentioned above is 1.4×10−8 nucleotide substitutions per site per year. We have also determined the divergence time ratios between the couples mousecow/rat-mouse and rat-cow/rat-mouse. In both cases this value is approximately 1.4.
Key wordsSilent substitution Molecular evolution Evolution of mitochondrial DNA Stochastic markov chain Monte Carlo simulation
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- Cantatore P, De Benedetto C, Gadaleta G, Gallerani R, Kroon AM, Holtrop M, Lanave C, Pope G, Quagliariello C, Sacone C, Sbisà E (1982) The nucleotide sequences of several tRNA genes from rat mitochondria: common features and relatedness to homologous species. Nucleic Acids Res 10:3279–3289PubMedGoogle Scholar
- Grosskopf R, Feldman H (1981) Analysis of a DNA segment from rat liver mitochondria containing the genes for the cytochrome oxidase subunits I, I and III, ATPase subunit 6 and several tRNA genes. Curr Genet 4:151–158Google Scholar
- Jukes TH, Cantor CR (1969) Evolution of protein molecules. In: Munro HN (ed) Mammalian Protein Metabolism, Vol III. Academic Press, New York, pp 21–132Google Scholar
- Pepe G, Holtrop M, Gadaleta G, Kroon AM, Cantatore P, Gallerani R, De Benedetto C, Quagliariello C, Sibisà E, Saccone C (1983) Non-random patterns of nucleotide substitutions and codon strategy in the mammalian mitochondrial genes coding for identified and unidentified reading frames. Biochem Intern 6:553–563Google Scholar
- Saccone C, De Benedetto C, Gadaleta G, Lanave C, Pepe G, Sbisà E, Cantatore P, Gallerani R, Quagliariello C, Holtrop M, Kroon AM (1983) Studies on the evolutionary history of the mammalian mitochondrial genome. In: Nagley P, Linnane AW, Peacock WJ, Pateman JA (eds) Manipulation and Expression of Genes in Eukaryotes. Academic Press, Sydney, pp 325–332Google Scholar