Inferring Phylogenetic Networks with Maximum Pseudolikelihood under Incomplete Lineage Sorting.

ABSTRACT: Phylogenetic networks are necessary to represent the tree of life expanded by edges to represent events such as horizontal gene transfers, hybridizations or gene flow. Not all species follow the paradigm of vertical inheritance of their genetic material. While a great deal of research has flourished into the inference of phylogenetic trees, statistical methods to infer phylogenetic networks are still limited and under development. The main disadvantage of existing methods is a lack of scalability. Here, we present a statistical method to infer phylogenetic networks from multi-locus genetic data in a pseudolikelihood framework. Our model accounts for incomplete lineage sorting through the coalescent model, and for horizontal inheritance of genes through reticulation nodes in the network. Co

SUBMITTER: Solis-Lemus C 

PROVIDER: S-EPMC4780787 | biostudies-literature | 2016 Mar

REPOSITORIES: biostudies-literature