Fast algorithm for the reconciliation of gene trees and LGT networks.

In phylogenomics, reconciliations aim at explaining the discrepancies between the evolutionary histories of genes and species. Several reconciliation models are available when the evolution of the species of interest is modelled via phylogenetic trees; the most commonly used are the DL model, accounting for duplications and losses in gene evolution and yielding polynomially-solvable problems, and the DTL model, which also accounts for gene transfers and implies NP-hard problems. However, when dealing with non-tree-like evolutionary events such as hybridisations, phylogenetic networks - and not phylogenetic trees - should be used to model species evolution.