© 2008 Society of Systematic Biologists
Filtered Z-Closure Supernetworks for Extracting and Visualizing Recurrent Signal from Incongruent Gene Trees
Edited by Thomas Buckley
1 Department of Entomology, University of Illinois Urbana, Illinois 61801, USA; E-mail: jwhitfie@life.uiuc.edu (J.B.W.); scameron@life.uiuc.edu (S.A.C.)
2 Center for Bioinformatics, Tübingen University 72075 Tübingen, Germany; E-mail: huson@informatik.uni-tuebingen.de
3 Allan Wilson Centre, University of Canterbury Christchurch, New Zealand; E-mail: m.steel@math.canterbury.ac.nz
Received April 18, 2008; Revised June 27, 2008; Accepted September 4, 2008
| The first 150 words of the full text of this article appear below. |
Most modern phylogenetic inference methods assume that data should be fitted to a set of possible trees, from which the optimal tree is to be identified. A bifurcating tree-like diagram is thought to best represent evolutionary history. This expectation follows largely from the view that (i) simultaneous divergence of multiple organismal lineages from the same common ancestor is likely to be rare (Hennig, 1966), hence the bifurcating attribute; and (ii) reticulate patterns of relationship caused by hybridization, horizontal gene transfer, and gene conversion and recombination are relatively minor deviations from an underlying single bifurcating pattern of evolution (Brown et al., 2001; Daubin et al., 2003).
Whether most of the pattern of evolutionary history is truly bifurcating is still uncertain, but it has become increasingly evident that complications such as hybridization, horizontal gene transfer, and lineage sorting of ancestral polymorphisms are not as rare as once
Filtering Supernetworks: A Primer
Identifying Underlying Species Trees from Conflicting Gene Trees: An Example from Parasitoid Wasps
Identifying the Root of an Ingroup Tree When Outgroups Disagree: An Example from the Corbiculate Bees
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