Rooted triple consensus and anomalous gene trees.

ABSTRACT:

Background

Anomalous gene trees (AGTs) are gene trees with a topology different from a species tree that are more probable to observe than congruent gene trees. In this paper we propose a rooted triple approach to finding the correct species tree in the presence of AGTs.

Results

Based on simulated data we show that our method outperforms the extended majority rule consensus strategy, while still resolving the species tree. Applying both methods to a metazoan data set of 216 genes, we tested whether AGTs substantially interfere with the reconstruction of the metazoan phylogeny.

Conclusion

Evidence of AGTs was not found in this data set, suggesting that erroneously reconstructed gene trees are the most significant challenge in the reconstruction of phylogenetic relation

SUBMITTER: Ewing GB 

PROVIDER: S-EPMC2409437 | biostudies-literature | 2008 Apr

REPOSITORIES: biostudies-literature