Advanced Phylogeny and Evolution

"The phylogenetic tree is a central concept in biology for students in the fields of ""Biodiversity, Ecology & Evolution"", ""Biology Agrosciences"", and ""Eco-epidemiology"". To approach phylogeny, this UE is divided into two successive parts of 22,5h each: ""Phylogeny and Evolution (Basics)"" (HAB708B) and ""Phylogeny and Evolution (Advanced)"" (HAB714B).

The following knowledge will be taught:

(i) History of the notion of evolution [Basics].

(ii) Phylogenetic systematics (characters, rules of taxonomy, molecular barcoding, genomics, alignment, homology and homoplasy, orthology and paralogy) [half in Basic; half in Advanced].

(iii) Phylogenetic representation (networks, trees, root, dendrograms, topology, branch lengths) [Bases].

(iv) Phylogenetic inference methods by distances [Advanced].

(v) The cladistic approach and the maximum parsimony principle [Basics].

(vi) The probabilistic approach, the maximum likelihood principle, and sequence evolution models [Advanced].

(vii) Measures of phylogeny robustness (bootstrap, topology comparison, multigene corroboration, gene and species trees) [Advances].

(viii) Applications to the phylogeny of some major taxonomic groups (Mammals, Eukaryotes) [Advances]."

Read phylogenetic trees and their parenthetical notation, and understand the information carried by their topologies and branch lengths. [Basics].

Reconstructing trees by distance methods. [Advanced].