Format

Send to

Choose Destination
Am Nat. 2012 Feb;179(2):145-56. doi: 10.1086/663681. Epub 2011 Dec 15.

A comparative method for both discrete and continuous characters using the threshold model.

Author information

1
Department of Genome Sciences, University of Washington, Seattle, Washington 98195, USA. joe@gs.washington.edu

Abstract

The threshold model developed by Sewall Wright in 1934 can be used to model the evolution of two-state discrete characters along a phylogeny. The model assumes that there is a quantitative character, called liability, that is unobserved and that determines the discrete character according to whether the liability exceeds a threshold value. A Markov chain Monte Carlo algorithm is used to infer the evolutionary covariances of the liabilities for discrete characters, sampling liability values consistent with the phylogeny and with the observed data. The same approach can also be used for continuous characters by assuming that the tip species have values that have been observed. In this way, one can make a comparative-methods analysis that combines both discrete and continuous characters. Simulations are presented showing that the covariances of the liabilities are successfully estimated, although precision can be achieved only by using a large number of species, and we must always worry whether the covariances and the model apply throughout the group. An advantage of the threshold model is that the model can be straightforwardly extended to accommodate within-species phenotypic variation and allows an interface with quantitative-genetics models.

PMID:
22218305
DOI:
10.1086/663681
[Indexed for MEDLINE]

Supplemental Content

Full text links

Icon for University of Chicago Press
Loading ...
Support Center