Mid-peninsular phylogeographic breaks have been reported in multiple taxa [e.g., 22]; but a broad range of divergences is observed, with some showing deep [46], [49], [51], while others shallower phylogeographic breaks [22].
Its ability to carry a phylogenetic signal across a broad range of divergences in vertebrates may also be due to a number of features, such as fairly homogeneous substitution rate matrix parameters, which are potentially important but largely unexplored for other phylogenetic markers.
It is worth noting that our fungal phylogeny covers a broader range of divergence than the mammals, giving this shared behavior more significance.
In contrast to most molecular studies on corals, the present study finds clear genetic breaks and deep divergence between many congeneric species, which is likely to have resulted from taxonomic sampling across a comparatively broad range of evolutionary divergence, and geographic regions.
We show its superiority over conventional methods for phylogenetic studies with a broad range of sequence divergence in and beyond the twilight zone of remote homology.
This careful choice of PH domain pairs then justifies this experimental comparison, irrespective of the broad range of sequence divergence within PH domain family known to exist across many species.
As expected from genome-pairs spanning such a broad range of 16S rRNA divergences, median Ks values ranged from 0.11 to 1.29 (average = 0.6), and median Ka values, from 0.006 to 0.058 (average = 0.03).
While the second prediction is intuitively reasonable, it is in fact rarely satisfied in actual organisms, especially for small genomes (such as prokaryotic genomes), where conservation pressures are very high and specific structures such as operons survive across broad ranges of evolutionary divergence.
Finally, a Mantel test comparison of the PST and FST matrices indicated that there was a broad tendency for high levels of pairwise morphological divergence to be associated with high values of pairwise microsatellite DNA divergence across a broad range of h values used in calculating PST (i.e., h = 0.25 0.75, Z = 45.6 76.5, r = 0.25 0.28, P = 0.01 0.008, e.g., Fig. 6).
In a recent review, Wilkins and colleagues (2013) introduced a framework for the comparative study of acoustic divergence across a broad range of taxa.
