论文标题
系统发育网络的聚类系统
Clustering Systems of Phylogenetic Networks
论文作者
论文摘要
当一组$ x $的分类单元的系统发育关系不仅涉及规格,还包括重组,水平转移或杂交,而树木无法捕获,则植根的无环图出现。文献中已经讨论了多种类别的此类网络,包括系统发育,1级,树木,基于树的基于树,累累的树,常规或普通网络,作为不同类型的进化过程的模型。簇在系统发育模型中出现,因为$ \ mathtt {c}(v)$ v $的后代分类群的$。聚类系统$ \ MATHSCR {C} _n $包括网络$ n $的集群,传达了$ n $本身的密钥信息。在根生系统发育树的特殊情况下,$ t $由其聚类系统$ \ mathscr {c} _t $唯一决定。尽管对于一般的网络而言,这不再是正确的,但感兴趣的是将$ n $和$ \ MATHSCR {C} _N $的属性联系起来。在这里,我们系统地研究了几个经过良好研究的网络及其聚类系统的关系。主要结果是以下形式的网络类和聚类系统的对应关系:如果$ n $是类型$ \ mathbb {x} $的网络,则$ \ nathcal {c} _n $满足$ \ mathbb {y} $,而相反,如果$ \ mthscr {c} $ a $ a $ a $ a $ n n $ n $ \ n $ \ n是clustring $ n clustring n $ n,类型$ \ mathbb {x} $,以便$ \ mathscr {c} \ subseteq \ mathscr {c} _n $。又允许我们详细研究不同网络之间的相互依赖关系。
Rooted acyclic graphs appear naturally when the phylogenetic relationship of a set $X$ of taxa involves not only speciations but also recombination, horizontal transfer, or hybridization, that cannot be captured by trees. A variety of classes of such networks have been discussed in the literature, including phylogenetic, level-1, tree-child, tree-based, galled tree, regular, or normal networks as models of different types of evolutionary processes. Clusters arise in models of phylogeny as the sets $\mathtt{C}(v)$ of descendant taxa of a vertex $v$. The clustering system $\mathscr{C}_N$ comprising the clusters of a network $N$ conveys key information on $N$ itself. In the special case of rooted phylogenetic trees, $T$ is uniquely determined by its clustering system $\mathscr{C}_T$. Although this is no longer true for networks in general, it is of interest to relate properties of $N$ and $\mathscr{C}_N$. Here, we systematically investigate the relationships of several well-studied classes of networks and their clustering systems. The main results are correspondences of classes of networks and clustering system of the following form: If $N$ is a network of type $\mathbb{X}$, then $\mathcal{C}_N$ satisfies $\mathbb{Y}$, and conversely if $\mathscr{C}$ is a clustering system satisfying $\mathbb{Y}$ then there is network $N$ of type $\mathbb{X}$ such that $\mathscr{C}\subseteq\mathscr{C}_N$.This, in turn, allows us to investigate the mutual dependencies between the distinct types of networks in much detail.