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Statistical inferences in phylogeography

Nielsen, R. and Beaumont, M. A. (2009) Statistical inferences in phylogeography. Molecular Ecology, 18 (6). pp. 1034-1047. ISSN 0962-1083

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To link to this item DOI: 10.1111/j.1365-294X.2008.04059.x

Abstract/Summary

In conventional phylogeographic studies, historical demographic processes are elucidated from the geographical distribution of individuals represented on an inferred gene tree. However, the interpretation of gene trees in this context can be difficult as the same demographic/geographical process can randomly lead to multiple different genealogies. Likewise, the same gene trees can arise under different demographic models. This problem has led to the emergence of many statistical methods for making phylogeographic inferences. A popular phylogeographic approach based on nested clade analysis is challenged by the fact that a certain amount of the interpretation of the data is left to the subjective choices of the user, and it has been argued that the method performs poorly in simulation studies. More rigorous statistical methods based on coalescence theory have been developed. However, these methods may also be challenged by computational problems or poor model choice. In this review, we will describe the development of statistical methods in phylogeographic analysis, and discuss some of the challenges facing these methods.

Item Type:Article
Refereed:Yes
Divisions:Life Sciences > School of Biological Sciences
ID Code:9663
Uncontrolled Keywords:Coalescence theory, likelihood based inference, phylogeography, MAXIMUM-LIKELIHOOD-ESTIMATION, SINGLE-NUCLEOTIDE POLYMORPHISMS, EFFECTIVE POPULATION-SIZE, CHAIN MONTE-CARLO, APPROXIMATE BAYESIAN, COMPUTATION, CLADISTIC-ANALYSIS, MIGRATION RATES, MITOCHONDRIAL-DNA, SEQUENCE DATA, GEOGRAPHICAL-DISTRIBUTION

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