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This observation is consistent with the slightly deleterious model since historical population sizes are considered much larger in Georgia compared to northern populations [ 9, 11], and excess deleterious mutation should be harder to detect in larger populations because of the proportionately greater efficiency of purifying selection.
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Figure 5 shows the effect of our correction on ML estimates of selection coefficients from loci simulated under a deleterious alleles model (i.e. negative selection; see figure caption for details) that again have been selected on the basis of depressed divergence.
In contrast, the deleterious mutation model we present here does not need to invoke processes to augment competition between antigenic strains because a large proportion of fitness variation in the virus population arises from differences in deleterious mutation loads.
Because mutations associated with node removal are likely to generate incomplete fragments or nonfunctional gene products (Zhong et al. 2009; Wang et al. 2012), we emphasized only on edgetic perturbation (due to deleterious mutations) model for further investigations.
However, for both interpretations, weakly deleterious mutation models pose a potential problem.
Alternative explanation such as biases in estimating the fraction of beneficial mutations or slightly deleterious mutation models are also discussed.
It is, however, formally also possible to explain the observed correlation between Ka and πs solely by deleterious mutations models.
Not surprisingly, he finds that nearly neutral deleterious mutation models all fall within the Ohta domain where the rate of evolution is inversely proportional to population size.
The higher population frequency of DNA and non-LTR elements relative to LTR elements may be related to the fact that they are in general shorter (Kaminker et al. 2002) and that shorter TE insertions are predicted to be less deleterious under models that posit TE evolution is controlled by genome compaction (Fontanillas et al. 2007) or ectopic exchange (Petrov et al. 2003).
This can arise in hybrids via increased heterozygosity, which could mask deleterious alleles (dominance model) or through the interaction of novel allele combinations, which produce a superior phenotype (overdominance model) (Birchler et al. 2006).
In addition, we do not explicitly model deleterious phenotypic mutations.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com