Phylogenetics workshop: Protein sequence phylogeny. Darren Soanes. Parts of a tree. plural of taxon = taxa. Phylogenetic tree: evolutionary family tree. Nodes in the tree represent speciation events, where an ancestral lineage gives rise to daughter lineages. Relationships in trees.
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plural of taxon = taxa
Nodes in the tree represent speciation events, where an ancestral lineage gives rise to daughter lineages.
Root - most recent common ancestor of all the taxa in a tree
outgroup — a taxon outside the group of interest. All the members of the group of interest are more closely related to each other than they are to the outgroup. Used to root the tree.
TOR: protein kinase, subunit of a complex that regulate cell growth in response to nutrient availability and cellular stresses
Looking at evolution of genes encoding two types of phosphoglycerate mutase in fungi.
Sampling conserved positions (GBlocks)
Determine substitution model (ModelGenerator)
Create tree (PhyML)
Visualise tree (TreeDyn)