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The three main clades (based on the Bayesian tree) did not cluster geographically.
This indicated that the type I pili in pneumococci circulating in Malawi were genetically closely related to those identified in the global Pneumococcal Molecular Epidemiology Network collection, previously classified into 3 main clades based on nucleotide sequence diversity (12).
The fungal CYPs are divided into 15 main clades based on their phylogenetic relationships (fig. 2), which could provide the information on evolutionary events of fungal CYPs such as family expansion.
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Each data set was split into Cape and non-Cape clades based on their main geographic distribution, high degrees of endemism - particularly within the CFR - allowed a simple assignment of clades.
We observed Brassicaeceae-specific clades and rice-specific clades based on our current analysis.
In addition, divergence times between main clades were estimated based on the resulting phylogenetic trees.
The divergence times of other main clades of Salix, estimated based on combined plastid datasets, are shown in Figure 4.
This study defines a set of genes giving a consistent and main phylogenetic signal as putative core genes in Roseobacter clade based on AU and SH tests.
This subdivision corresponds to the two main clades observed in the Madracis phylogeny based on the mitochondrial nad5 region [ 9], similar to the genetic divergence observed between "shallow" and "deep" species in the genus Agaricia.
That said, there are other haplotypes that exhibit signs of differential evolution, although they are placed in the main clade and their base composition seems standard, such as CH.1.4, CB.1.1, CHB, CB.1.3.
Based on subunit architecture and oligomerization, two main clades are distinguished.
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