Widespread discordance of gene trees with species tree in drosophila: evidence for incomplete lineage sorting (academic.oup.com)
Although the genome - wide species phylogeny supported a single topology (fig. 1), rarely will the entire genome reflect a single topology, as incomplete lineage sorting and gene flow can distort the underlying species tree (Degnan and Rosenberg 2009). (academic.oup.com)
My PhD research was based on algorithms in Computational Phylogenetics, especially constructing species trees from topologically incongruent gene trees. (lji.org)