However, little is known about the evolutionary rate of the two types in animals.
The evolutionary rate of the analyzed regions was calculated to be 8.09×10−3 substitutions per site per year.
Therefore, the exponential increase of Ne over time in tumor tissues was apparently not related to an increased evolutionary rate of the virus in the infiltrating macrophages.
If adjacent proteins show similar evolutionary rates, we would expect a positive correlation between the evolutionary rate of the focal protein and the average neighbour rate.
Likewise, the evolutionary rate of the MEF2 family also reveals the same pattern that MADS factors evolve faster in mice than in humans.
Hence, these results indicate that the evolutionary rate of the host genome is a less important determinant of differences among ERV-Ks than host population dynamics.
We tried to account for among site rate variation by partitioning the data into codon positions and also after the evolutionary rate of the genes.
The use of a fixed rate, however, produces results that vary considerably with ERV family and the actual evolutionary rate of the sequence, and should be avoided whenever multi-species phylogenetic data are available.
If we assume it is 75 years then the average evolutionary rate of the potyvirus populations is 1.173×10−4 ns/s/yr and hence the potyvirus radiation occurred 6353 YBP.
This adaptive response to changing environmental conditions results in an acceleration of evolutionary rate of the lineage and the functional evolution of specific stress-response proteins, which favors organismic fitness to a new environment.
The use of a fixed rate produces results that vary considerably with ERV family and the actual evolutionary rate of the sequence, and should be avoided whenever multi-species phylogenetic data are available.
