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Science 30 June 2000:
Vol. 288. no. 5475, pp. 2349 - 2350
DOI: 10.1126/science.288.5475.2349
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Reports
Accommodating Phylogenetic Uncertainty in Evolutionary Studies
John P. Huelsenbeck,
1*
Bruce Rannala,
2
John P. Masly
1
Many evolutionary studies use comparisons across species
to detect evidence of natural selection and to examine the rate of character evolution. Statistical analyses in these studies are usually
performed by means of a species phylogeny to accommodate the effects of
shared evolutionary history. The phylogeny is usually treated as known
without error; this assumption is problematic because inferred
phylogenies are subject to both stochastic and systematic errors. We
describe methods for accommodating phylogenetic uncertainty in
evolutionary studies by means of Bayesian inference. The methods are
computationally intensive but general enough to be applied in most
comparative evolutionary studies.
1 Department of Biology, University of Rochester,
Rochester, NY 14627, USA.
2 Department of Medical Genetics,
University of Alberta, Edmonton, Alberta T6G 2H7, Canada.
*
To whom correspondence should be addressed. E-mail:
johnh{at}brahms.biology.rochester.edu
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- Phylogeny of the lichen genus Placopsis and its allies based on Bayesian analyses of nuclear and mitochondrial sequences.
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- Bayes or Bootstrap? A Simulation Study Comparing the Performance of Bayesian Markov Chain Monte Carlo Sampling and Bootstrapping in Assessing Phylogenetic Confidence.
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