Lecture 3: A Brief Overview of Molecular Phylogeny - MCD Biology
Lecture 3: A Brief Overview of Molecular Phylogeny - MCD Biology
Lecture 3: A Brief Overview of Molecular Phylogeny - MCD Biology
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22<br />
2. What causes variation in genome/rRNA base composition (genomes are more radically different in base<br />
comp than rRNA seqs)? Answer not known.<br />
C. Taxon selection:<br />
1. Taxa included in a tree can have BIG influence on topology <strong>of</strong> any particular association because <strong>of</strong> random<br />
similarities/ dissimilarities. To test any association or branching order, solve tree with different suites <strong>of</strong><br />
taxa.<br />
2. The broadest possible representation <strong>of</strong> diversity in the in-group is necessary for the most accurate<br />
topologies <strong>of</strong> associations.<br />
3. But, in general, minimize the number <strong>of</strong> “outgroup” sequences used to “root” an in-group cluster <strong>of</strong><br />
interest.<br />
9. “Signature Analysis” - use <strong>of</strong> simple features to test a tree or assign seqs to “clades” (relatedness groups)
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