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Using a phylogenetic hypothesis constructed following Hackett et al. [40] (Text S1) the phylogenetic correlation is, in general, slightly higher, but our interpretation of the results remained unchanged (Table S1).
We examined species relationships using a phylogenetic hypothesis of the genus Liolaemus derived from different recent studies [ 11, 27, 51, 59, 123].
Specifically, we aim to infer the ancestral chromosome numbers and patterns of chromosome number variation, assess patterns of variation of both 45S and 5S rDNA families, trends in site-number change of rDNA loci within homoploid and polyploid series, and reconstruct the evolutionary history of rDNA site number using a phylogenetic hypothesis as a framework.
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The present study used a phylogenetic hypothesis of the relationships among the taxa in the BCI forest plot to quantify the evolutionary signal in three soil nutrients and elements (extractable phosphorus, aluminum and manganese), pH, slope and a general index of soil fertility determined by using Principal Component Analyses (PCA) axes which combine 15 soil variables.
Hence, we obtained 12 phylogenetic trees, each of which was used as a phylogenetic hypothesis for selection analyses.
In recent years there is an emerging interest in compiling broad-scale datasets to identify general patterns and test specific hypotheses using a phylogenetic framework.
Here we examine chromosomal arrangement in representatives of the melanica and the robusta species groups and test these alternative hypotheses using a phylogenetic approach.
Our study is the first to test hypotheses on the evolutionary history of migration in bats using a phylogenetic framework.
Using a molecular phylogenetic hypothesis and other methods, we seek to develop a biogeographic hypothesis for Sylvia and to explicitly assess the roles of these climate-driven events.
Datasets were also used to support a phylogenetic hypothesis about pancrustacean relationships, which, in addition to gene structures, allowed us to propose two evolutionary scenarios of this multigenic family in ecdysozoans.
The second pathway has been to construct a phylogenetic hypothesis using novel molecular data or to generate a phylogenetic supertree using previously published datasets.
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