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Three main clades corresponding to the Central-Eastern, Western, and Southern regions of the whole distribution range of the genus Algansea were recovered with high support values.
The tree showed 3 main clades, corresponding to genotypes I, II, and III, and BR/2004/ACRE27 grouped within genotype I strains.
A phylogenetic analysis of caspase p-domains from D. melanogaster, Danio rerio, Xenopus laevis, Gallus gallus, Mus musculus and Homo sapiens identified three main clades corresponding to inflammatory, apoptotic or apoptotic initiator responses [ 56].
A Neighbor-Joining tree of 179 individuals (116 of them also included in the mitochondrial analysis) based on allele-sharing distance shows two main clades corresponding to the Iberian chamois (Clade μsatW) and the Eastern chamois (Clade μsatE) and a third one (Clade μsatC) that groups the Apennine chamois, the subspecies R. pyrenaica ornata.
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Pentasepalae based on DNA sequence data revealed four main clades each corresponding to a broad geographic area (Rojas-Andrés et al., 2015).
The RSSC is divided in three main phylogenetic clades corresponding to phylotypes 2, 4 and (1 + 3) [ 1, 11].
The Bayesian phylogenetic tree displayed two main clades with maximum support values corresponding to P. integrifolia subspecies and a divergence time of approximately 635 thousand years ago (Kya; Figure 2 top).
The heatmap representation of the global expression pattern allowed the clustering of tomato ERFs in three main clades, with clade I (16 ERFs) corresponding to genes preferentially expressed in reproductive tissues, clade II (4 ERFs) corresponding to genes with an ubiquitous expression without tissue preference, and clade III (5 ERFs) mainly active in vegetative tissues.
This produced eight separated sub-networks above this limit, corresponding to the main clades of the tree of Figure 3.
Hsfs of Malus domestica, Arabidopsis thaliana and Populus trichocarpa were clearly grouped into three different clades corresponding to the main Hsf classes A, B and C. Within the A-type clade, nine distinct sub-clades were resolved, seven of which (A1, A2, A3, A4, A5, A8 and A9) comprised the apple Hsf sequences.
The Hsf genes from the three species were clearly grouped into three different clades corresponding to the main Hsf classes A, B, and C. In the PbHsf genes family, 19, 8, and 2 genes were assigned to Classes A, B, and C, respectively.
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