Urbini Laura, Sinaimeri Blerina, Matias Catherine, Sagot Marie-France
IEEE/ACM Trans Comput Biol Bioinform. 2019 May-Jun;16(3):738-748. doi: 10.1109/TCBB.2018.2838667.
The aim of this paper is to explore the robustness of the parsimonious host-symbiont tree reconciliation method under editing or small perturbations of the input. The editing involves making different choices of unique symbiont mapping to a host in the case where multiple associations exist. This is made necessary by the fact that the tree reconciliation model is currently unable to handle such associations. The analysis performed could however also address the problem of errors. The perturbations are re-rootings of the symbiont tree to deal with a possibly wrong placement of the root specially in the case of fast-evolving species. In order to do this robustness analysis, we introduce a simulation scheme specifically designed for the host-symbiont cophylogeny context, as well as a measure to compare sets of tree reconciliations, both of which are of interest by themselves.
本文的目的是探讨简约的宿主-共生体树和解方法在输入进行编辑或小扰动时的稳健性。编辑涉及在存在多个关联的情况下，对与宿主的独特共生体映射做出不同选择。之所以有必要这样做，是因为目前树和解模型无法处理此类关联。然而，所进行的分析也可以解决错误问题。扰动是共生体树的重新生根，以处理特别是在快速进化物种的情况下根可能错误放置的问题。为了进行这种稳健性分析，我们引入了一种专门为宿主-共生体共系统发育背景设计的模拟方案，以及一种比较树和解集的度量，这两者本身都很有意义。
