Wilson Daniel J, Falush Daniel, McVean Gilean
Peter Medawar Building for Pathogen Research, University of Oxford, South Parks Road, Oxford, UK, OX1 3SY.
Trends Ecol Evol. 2005 Jan;20(1):39-45. doi: 10.1016/j.tree.2004.10.009. Epub 2004 Nov 2.
Genetic diversity in pathogen species contains information about evolutionary and epidemiological processes, including the origins and history of disease, the nature of the selective forces acting on pathogen genes and the role of recombination in generating genetic novelty. Here, we review recent developments in these fields and compare the use of population genetic, or population-model based, approaches to phylogenetic, or population-model free, methodologies. We show how simple epidemiological models can be related to the ancestral, or coalescent, process underlying samples from pathogen species, enabling detailed inference about pathogen biology from patterns of molecular variation.
病原体物种的遗传多样性包含有关进化和流行病学过程的信息，包括疾病的起源和历史、作用于病原体基因的选择力的性质以及重组在产生遗传新奇性中的作用。在这里，我们回顾这些领域的最新进展，并比较基于群体遗传学或群体模型的方法与系统发育学或无群体模型的方法的使用情况。我们展示了简单的流行病学模型如何与病原体物种样本背后的祖先或合并过程相关联，从而能够从分子变异模式中对病原体生物学进行详细推断。
