How to build phylogenetic species trees with OMA

摘要: Knowledge of species phylogeny is critical to many fields biology. In an era genome data availability, the most common way make a phylogenetic tree by using multiple protein-coding genes, conserved in species. This methodology composed several steps: orthology inference, sequence alignment and inference with dedicated tools. can be difficult task, particular, usually computationally intensive error prone if done ad hoc . tutorial provides protocols use OMA Orthologous Groups, set genes all orthologous each other, infer tree. It designed user-friendly inexpensive, providing two options: (1) Using only precomputed groups available on Browser, or (2) Computing orthologs Standalone for additional species, option relations those present OMA. A protocol downstream analyses provided as well, including creating supermatrix, visualization. All publicly software, we provide scripts code snippets facilitate handling. The are accompanied practical examples.