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Comparing dN, dS, and ω (dN/dS) to species-richness of clades allows us to separate the effect of mutation rate on net diversification from the effect of selection and effective population size.
Then, a novel general effect of mutation rate on minimized objective value are presented.
At no time point is there a significant effect of mutation rate on fitness.
Further analyses of mutation rate are needed in order to resolve the effect of mutation rate on dS.
Population genetic simulations were used to understand the combined effect of mutation rate, recombination rate, population size, and fitness on pathway evolution.
In figure 4, we plot the effect of mutation rate on the fitness reduction due to hemizygosity with Gaussian fitness (σ = 0.6) in pathways of 15 25 steps.
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The low between-population differentiation and lack of substructure could be expected as a result of the high within-population diversities, and the effect of mutation rates on the estimation of θ [Meirmans and Hedrick, 2011].
A recent study indicated that the correlation between substitution rate and clade size in birds might be driven by the effect of mutation rates on the process of diversification [ 5].
Making use of the NK fitness landscape model, we analyse the effects of mutation rate, crossover and selection pressure on the performance of DE.
We group point variation gleaned from public databases by their wild-type and mutant codons, e.g. codon mutation classes (CMCs, 576 possible such as ACG→ATG), whose frequencies in a database are assembled into a BLOSUM-style matrix describing the likelihood of observing all possible single base codon changes as tuned by the intertwined effects of mutation rate and selection.
To estimate the relative effects of mutation rate and selection on PSS, we compared a linear model that used both the mutation rate and functional type as predictors (model 1) with two others that used only the mutation rate (model 2) or functional type (model 3) as the predicting variable.
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