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This agreement is strong in the regime of high stability where protein evolution is neutral.
However, as the rate of change in genetic diversity is expected to be influenced by its own initial value, whether evolution is neutral (Nei et al.
This suggests that although the genome evolution is neutral over the long-term, strains that carry the genes enabling them to defeat the antibiotic treatments are favored during an outbreak.
In conclusion, under the assumptions that k SP = k SM and that replicases do not discriminate between intra-species and inter-species replication, strand preference per se is not under any selective forces in a well-mixed system, and, therefore, contrary to a prior expectation from the optimization of the growth, its evolution is neutral.
This index aims at comparing the ratio of non-synonymous (= amino acid changing) to synonymous (silent) changes within species (π n / π s ) and between species (D n / D s ): NI is one when evolution is neutral, higher than one under purifying selection, and lower than one in case of adaptation.
Finally, whether it is beneficial for the regulatory elements to reside within the first intron, as opposed to, say, the upstream region of the gene, or whether evolution is neutral to this outside-inside choice, is another open and interesting question.
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When 2 Ns < 1, evolution is nearly neutral and drift dominates, so the system is close to the neutral equilibrium a0.
This maximized our chances of sampling pathogenic alleles, because completely conserved positions are rare when species sampling is diverse and evolution is strictly neutral.
As a further comparison we will also make use of a simple model of network growth, which will serve as a model of a scenario where evolution is completely neutral and only controlled by biochemical constraints.
The simplest model of phenotypic evolution is the neutral Brownian motion [ 25], where total evolutionary change in a continuous character is distributed normally, with a mean equal to the ancestral value for the entire tree and variance proportional to the amount of time elapsed from tree root to tips.
As the authors argue earlier in the paper, it is neutral evolution in the functionally "static" period that promotes effective search, then new variants are fixed through a rapid bout of selection.
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