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Molecular Biology and Evolution, Vol 16, 1664-1674, Copyright © 1999 by Society for Molecular Biology and Evolution
X Gu
Functional innovations after gene duplication may result in altered
functional constraints between member gene clusters of a gene family. This
type (type I) of functional divergence is measured by the coefficient of
functional divergence (theta lambda), which can be interpreted as the
decrease in rate correlation between gene clusters, or the probability that
the evolutionary rate at a site is statistically independent between two
gene clusters. A simple stochastic model has been developed for estimating
theta lambda and testing its statistical significance. The current model
includes the model of rate variation among sites as a special case when
theta lambda = 0. Moreover, we have developed a site-specific profile based
on the hidden Markov model to identify critical amino acid residues that
are responsible for these functional differences between two gene clusters,
which may have great potential in functional genomics.
ORIGINAL ARTICLE
Statistical methods for testing functional divergence after gene duplication
Department of Zoology/Genetics, Iowa Computational Molecular Biology Laboratory, Iowa State University, Ames 50011, USA. xgu@iastate.edu
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