File:Acanthofungus-Maximum Likelihood -Tree.svg

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Molecular Phylogenetic analysis by Maximum Likelihood method (Acanthofungus rimosus and related taxa)
The evolutionary history was inferred by using the Maximum Likelihood method based on the Kimura 2-parameter model [1]. The tree with the highest log likelihood (-2718.2260) is shown. The percentage of trees in which the associated taxa clustered together is shown next to the branches. Initial tree(s) for the heuristic search were obtained by applying the Neighbor-Joining method to a matrix of pairwise distances estimated using the Maximum Composite Likelihood (MCL) approach. A discrete Gamma distribution was used to model evolutionary rate differences among sites (5 categories (+G, parameter = 0.5705)). The rate variation model allowed for some sites to be evolutionarily invariable ([+I], 60.8784% sites). The tree is drawn to scale, with branch lengths measured in the number of substitutions per site. The analysis involved 20 nucleotide sequences. There were a total of 934 positions in the final dataset. Evolutionary analyses were conducted in MEGA6 [6].

1. Kimura M. (1980). A simple method for estimating evolutionary rate of base substitutions through comparative studies of nucleotide sequences. Journal of Molecular Evolution 16:111-120.
2. Tamura K., Stecher G., Peterson D., Filipski A., and Kumar S. (2013). MEGA6: Molecular Evolutionary Genetics Analysis version 6.0. Molecular Biology and Evolution30: 2725-2729.

List with GenBank Sequences, which were used for the ML-Tree.
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