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The former account for the depth of sequence divergence, whereas the latter does not.
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The phylogenetic depth, in terms of sequence divergence, for our set of protein markers was also similar for the Euryarchaeota and the TACK group (∼65% amino acid sequence similarity for comparisons of the same taxa as earlier).
The prokaryotic datasets shown in Figure 1— prokaryotes, proteobacteria, gammaproteobacteria — encompass the same 48 genes, but because of their different phylogenetic depth, they span different levels of sequence divergence, the average pairwise identity being 32%, 48%and67%7% respectively.
Data reported here also indicate high levels of sequence divergence within Glyphorynchus.
However, the strategies used for maintaining binding and function in the face of sequence divergence is different.
Xu, G. , Ma H., Nei, M. & Kong, H. Evolution of F-box genes in plants: different modes of sequence divergence and their relationships with functional diversification.
Howell, N. et al. The pedigree rate of sequence divergence in the human mitochondrial genome: there is a difference between phylogenetic and pedigree rates.
For duplicated genes, structural divergence and nucleotide substitution are two major types of sequence divergence [ 36].
This would produce upwardly biased estimates of sequence divergence.
TSLP exhibit a high level of sequence divergence.
Protein structure mediates site-specific patterns of sequence divergence.
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