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Int. J. Mol. Sci. 2010, 11(4), 1190-1227; doi:10.3390/ijms11041190

Inference of Population History by Coupling Exploratory and Model-Driven Phylogeographic Analyses

1
Department of Ecology & Evolutionary Biology, Yale University, New Haven, Connecticut 06520, USA
2
Australian Centre for Biodiversity, School of Biological Sciences, Monash University, Clayton, Victoria 3800, Australia
*
Author to whom correspondence should be addressed.
Received: 26 January 2010 / Revised: 18 March 2010 / Accepted: 19 March 2010 / Published: 24 March 2010
(This article belongs to the Special Issue Cladistic Analysis and Molecular Evolution)
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Abstract

Understanding the nature, timing and geographic context of historical events and population processes that shaped the spatial distribution of genetic diversity is critical for addressing questions relating to speciation, selection, and applied conservation management. Cladistic analysis of gene trees has been central to phylogeography, but when coupled with approaches that make use of different components of the information carried by DNA sequences and their frequencies, the strength and resolution of these inferences can be improved. However, assessing concordance of inferences drawn using different analytical methods or genetic datasets, and integrating their outcomes, can be challenging. Here we overview the strengths and limitations of different types of genetic data, analysis methods, and approaches to historical inference. We then turn our attention to the potentially synergistic interactions among widely-used and emerging phylogeographic analyses, and discuss some of the ways that spatial and temporal concordance among inferences can be assessed. We close this review with a brief summary and outlook on future research directions.
Keywords: cladistic analysis; landscape history; molecular markers; population structure; statistical phylogeography; temporal contrasts cladistic analysis; landscape history; molecular markers; population structure; statistical phylogeography; temporal contrasts
This is an open access article distributed under the Creative Commons Attribution License (CC BY 3.0).

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Garrick, R.C.; Caccone, A.; Sunnucks, P. Inference of Population History by Coupling Exploratory and Model-Driven Phylogeographic Analyses. Int. J. Mol. Sci. 2010, 11, 1190-1227.

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