Analysis of phylogenomic datasets reveals conflict, concordance, and gene duplications with examples from animals and plants.

ABSTRACT:

Background

The use of transcriptomic and genomic datasets for phylogenetic reconstruction has become increasingly common as researchers attempt to resolve recalcitrant nodes with increasing amounts of data. The large size and complexity of these datasets introduce significant phylogenetic noise and conflict into subsequent analyses. The sources of conflict may include hybridization, incomplete lineage sorting, or horizontal gene transfer, and may vary across the phylogeny. For phylogenetic analysis, this noise and conflict has been accommodated in one of several ways: by binning gene regions into subsets to isolate consistent phylogenetic signal; by using gene-tree methods for reconstruction, where conflict is presumed to be explained by incomplete lineage sorting (ILS); or through

SUBMITTER: Smith SA 

PROVIDER: S-EPMC4524127 | biostudies-literature | 2015 Aug

REPOSITORIES: biostudies-literature