Phylogenetic test of the molecular clock and linearized trees |
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Authors: | Takezaki N; Rzhetsky A; Nei M |
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Institution: | Institute of Molecular Evolutionary Genetics, Pennsylvania State University, University Park 16802, USA. |
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Abstract: | To estimate approximate divergence times of species or species groups with
molecular data, we have developed a method of constructing a linearized
tree under the assumption of a molecular clock. We present two tests of the
molecular clock for a given topology: two-cluster test and branch-length
test. The two-cluster test examines the hypothesis of the molecular clock
for the two lineages created by an interior node of the tree, whereas the
branch-length test examines the deviation of the branch length between the
tree root and a tip from the average length. Sequences evolving excessively
fast or slow at a high significance level may be eliminated. A linearized
tree will then be constructed for a given topology for the remaining
sequences under the assumption of rate constancy. We have used these
methods to analyze hominoid mitochondrial DNA and drosophilid Adh gene
sequences.
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