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The rate of synonymous and non-synonymous nucleotide substitutions can be used as a basis for studying molecular sequence evolution [28].
More accurate mathematical models of molecular sequence evolution continue to be developed for good reasons.
Commonly used phylogenetic sequence generators employ homogeneous, time reversible, stationary models of molecular sequence evolution.
Molecular sequence evolution exhibits a high complexity that is not fully accounted for in current models of sequence evolution.
But, as we show above, we did not find significant differences in the pattern of molecular sequence evolution for the class of differentially expressed genes.
Estimation of rate constants for nucleotide substitutions at silent sites of encoding DNA is important to understanding the dynamics of molecular sequence evolution [ 1- 6].
Similar(51)
Thus, all these events appear to occur under a genomic clock, by analogy to the traditional molecular clock of sequence evolution [ 59].
Are a disproportionately larger fraction of such gene copies with molecular signatures of accelerated sequence evolution likely to endure a fate of extinction/pseudogenization?
In Arabidopsis, R-proteins of the NB-LRR type have been studied extensively in terms of molecular function, structural organization, sequence evolution and chromosomal distribution [ 10– 13].
Molecular phylogenetic methods are used by a wide range of biologists, from bioinformaticians willing to characterize and improve models of sequence evolution to molecular biologists trying to grasp the particular evolutionary history of their gene of interest.
To conduct the likelihood-ratio test (LRT) of the molecular clock, a model of sequence evolution was selected using DT-ModSel [65], and this model was verified to fit the data with an absolute goodness-of-fit test [66].
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