Estimating Species Trees from Quartet Gene Tree Distributions under the Coalescent Model

Details Estimating Species Trees from Quartet Gene Tree Distributions under the Coalescent Model Estimating Species Trees from Quartet Gene Tree Distributions under the Coalescent Model

2011-08-08

arxiv.org/abs/1108.1628v1

Biology

Quantitative Biology

Populations and Evolution

26 pages, 5 figures, 2 tables

Scientific paper

In this article we propose a new method, which we name 'quartet neighbor joining', or 'quartet-NJ', to infer an unrooted species tree on a given set of taxa T from empirical distributions of unrooted quartet gene trees on all four-taxon subsets of T. In particular, quartet-NJ can be used to estimate a species tree on T from distributions of gene trees on T. The quartet-NJ algorithm is conceptually very similar to classical neighbor joining, and its statistical consistency under the multispecies coalescent model is proved by a variant of the classical 'cherry picking'-theorem. In order to demonstrate the suitability of quartet-NJ, coalescent processes on two different species trees (on five resp. nine taxa) were simulated, and quartet-NJ was applied to the simulated gene tree distributions. Further, quartet-NJ was applied to quartet distributions obtained from multiple sequence alignments of 28 proteins of nine prokaryotes.

Affiliated with

Also associated with

No associations

Rating

Estimating Species Trees from Quartet Gene Tree Distributions under the Coalescent Model does not yet have a rating. At this time, there are no reviews or comments for this scientific paper.

If you have personal experience with Estimating Species Trees from Quartet Gene Tree Distributions under the Coalescent Model, we encourage you to share that experience with our LandOfFree.com community. Your opinion is very important and Estimating Species Trees from Quartet Gene Tree Distributions under the Coalescent Model will most certainly appreciate the feedback.

Rate now

Comments { 0 }

Profile ID: LFWR-SCP-O-189726