Phylogeography of Anthriscus sylvestris s.l.

Molecular data matrices and resulting phylogenetic trees for species of Anthriscus Pers. and outgroup Kozlovia Lipsky. Data matrices contain nucleotide sequences of (1) nuclear Internal Transcribed Spacer (nrITS), (2) nuclear single-copy waxy gene, and (3) three plastid intergenic spacers: rpoB-trnC, trnS-trnG, and psbA-trnH. The resulting phylogenetic trees were obtained using the Maximum Likelihood principle implemented in RAxML and Bayesian Inference utilising MrBayes (topological inference) and BEAST (molecular dating). ML trees are provided with bootstrap support for internal nodes, whereas Bayesian trees have an estimate of a posterior probability for each clade. Trees obtained with MrBayes were summarized as 50% majority rule consensus trees and those obtained in BEAST as Maximum Clade Credibility Trees with median heights for internal nodes.Note: clusters of identical sequences were identified in the matrices, and single representatives were kept before calculating the phylogenetic trees. Thus, the trees contain less OTU than listed in the matrices.

本数据集涵盖峨参属（Anthriscus Pers.）物种及其外类群科兹洛夫草属（Kozlovia Lipsky）的分子数据矩阵，以及由此构建得到的系统发育树。数据矩阵包含三类核苷酸序列：(1) 核内转录间隔区（nuclear Internal Transcribed Spacer, nrITS）；(2) 核基因组单拷贝蜡质基因；(3) 三个质体基因间隔区：rpoB-trnC、trnS-trnG与psbA-trnH。本次构建的系统发育树基于两种分析方法获得：一是最大似然法，通过RAxML软件实现；二是贝叶斯推断法，分别利用MrBayes（用于拓扑结构推断）与BEAST（用于分子定年）完成。最大似然树附带内部节点的自举支持值，而贝叶斯树则给出了每个支系的后验概率估计值。由MrBayes生成的系统发育树被汇总为50%多数规则共识树，由BEAST生成的树则被整理为最大支系可信树，其内部节点标注了中位分支长度。注：数据矩阵中已鉴定出完全一致的序列簇，在构建系统发育树前仅保留其中一条代表序列。因此，最终系统发育树中的操作分类单元（Operational Taxonomic Unit, OTU）数量少于数据矩阵中所列的数量。