Counting coalescent histories

被引:40
作者
Rosenberg, Noah A.
机构
[1] Univ Michigan, Dept Human Genet, Bioinformat Program, Ann Arbor, MI 48109 USA
[2] Univ Michigan, Inst Life Sci, Ann Arbor, MI 48109 USA
关键词
genealogy; labeled history; labeled topology; lineage sorting; phylogeny;
D O I
10.1089/cmb.2006.0109
中图分类号
Q5 [生物化学];
学科分类号
071010 ; 081704 ;
摘要
Given a species tree and a gene tree, a valid coalescent history is a list of the branches of the species tree on which coalescences in the gene tree take place. I develop a recursion for the number of valid coalescent histories that exist for an arbitrary gene tree/species tree pair, when one gene lineage is studied per species. The result is obtained by defining a concept of m-extended coalescent histories, enumerating and counting these histories, and taking the special case of m = 1. As a sum over valid coalescent histories appears in a formula for the probability that a random gene tree evolving along the branches of a fixed species tree has a specified labeled topology, the enumeration of valid coalescent histories can considerably reduce the effort required for evaluating this formula.
引用
收藏
页码:360 / 377
页数:18
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