Phylogeny is a hypothesis of evolutionary relationships among organisms.
The study of biological diversity and the relationships among organisms through time.
Document, identify, describe species and classify them to provide a taxonomic concept (hypothesis).
Understand the evolutionary history of the organisms to provide the pattern of evolution.
Phylogenetic tree is a hypothesis based on all available data (taxa and characters).
Timeline of phylogenetic research and publications (1904-2016).
Key components:
Terminals (Taxa)
Outgroup
Ingroup
Node
Branch
Root
Characters: Apomorphy vs. Plesiomorphy.
Autapomorphy: uniquely derived character.
Synapomorphy: shared derived character.
Symplesiomorphy: shared ancestral character.
The concept of synapomorphy and symplesiomorphy is context-dependent.
Monophyletic group: A group of organisms which includes the most recent common ancestor of all of its members and all of the descendants of that most recent common ancestor.
Paraphyletic group: A group of organisms which includes the most recent common ancestor of all of its members, but not all of the descendants of that most recent common ancestor.
Polyphyletic group: A group of organisms which does not include the most recent common ancestor of those organisms; the ancestor does not possess the character shared by members of the group.
The goal of a phylogenetic analysis is to recover a monophyletic clade grouped by synapomorphies.