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Our Bayesian phylogenetic inference supports this hypothesis.
Phylogenetic inference was also conducted with a Bayesian method using MrBayes v3.1.2 (Huelsenbeck and Ronquist, 2001).
Data bearing on this issue can be obtained using fossils and phylogenetic inference (e.g., Arnold 1994).
There are several other approaches to phylogenetic inference (see Felsenstein [2004] for a comprehensive review).
The construction of morphological character sets for phylogenetic inference is dependent on robust determination of homology.
Accounting for this correlation is important for phylogenetic inference because it affects the likelihood calculation.
Sequence determination and phylogenetic inference in RDP-II affiliated the sequence to unclassified cyanobacteria.
Fortunately, one can interpret trees and use them for organizing knowledge of biodiversity without knowing the details of phylogenetic inference.
Baum and Smith elegantly explain the mathematical basis of phylogenetic inference by providing sufficient detail in an accessible manner.
Likelihood-based approaches are robust for phylogenetic inference.
The positional homology alignment facilitates downstream alignment tasks such as phylogenetic inference of nucleotide substitution, phylogenetic inference of gene gain and loss [55], phylogenetic inference of rearrangement [64], and even inference of homologous recombination-induced lateral gene transfer [71].
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