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How people interpret and understand evolutionary trees is a complex interaction between their prior knowledge and understanding of underlying evolutionary ideas such as similarity, ancestry, and relatedness, and their ability to read the relationships depicted in a schematic tree diagram.
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I would highly suggest a schematic tree representation that corresponds to the hyperpartition shown in Figure 2 showing these phylogenetic relationships.
A schematic tree was reconstructed to show the relationship among these mtDNAs.
A schematic tree demonstrating the currently accepted phylogenetic positions of the major lineages in the Archaeplastida (Yoon et al., 2006 ; Leliaert et al., 2012 ).
A schematic tree depicts the currently accepted phylogenetic relationships between organisms.
Probabilities (p) not shown signify p > 0.05; Foreground-branch numbers correspond to the numbering in the schematic tree shown in Figure 3. Values in parenthesis were obtained after removing an unusually diverged region from rhesus CCT8L (see text).
The summary of these results is very simple: in all cases, the best model implies strong negative selection on the branch that corresponds to the elements with potentially active ORFs (branch "z" in the schematic tree shown at the top of Table 3).
In an analysis of ant relationships, Brady et al. [ 32] found strong support for the grouping of Polyrhachis with Camponotus + Calomyrmex, the relationship reflected in schematic tree A. While the rooting of the Camponotini was uncertain, it may occur along the Opisthopsis lineage [ 32].
A schematic phylogenetic tree involving the organisms discussed here is shown in Fig. 2.
Because of their size and complexity, gene trees are represented as interpretations in the form of schematic trees in the main manuscript.
Schematic tree of the Drosophila species analyzed in this study.
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