Inferring the number of evolutionary events from DNA coding sequence differences |
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Authors: | Lewontin RC |
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Institution: | Museum of Comparative Zoology, Harvard University, Cambridge, Massachusetts 02138. |
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Abstract: | The estimation of the amount of evolutionary divergence that has taken
place between two DNA coding sequences depends strongly on the degree of
constraint on amino acid replacements. If amino acid replacements are
relatively unconstrained, the individual nucleotide is the appropriate unit
of analysis and the method of Tajima and Nei can be used. If amino acid
replacements are constrained, however, this method is shown to be
inapplicable. For sequences with strong amino acid constraints, a method is
outlined analogous to the Tajima and Nei method using codons as the unit of
analysis. Only synonymous substitutions are used. Codon usage data can be
employed to estimate the necessary parameters of the calculation, or a
priori models of substitution may be employed. Sequences with significant
but intermediate constraints on amino acid replacements are, in principle,
unanalyzable.
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Keywords: | |
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