From gene trees to a dated allopolyploid network: insights from the angiosperm genus Viola (Violaceae) [0.03%]
从基因树到有日期的异源多倍体网络：被子植物属Viola（ Violaceae）的新见解
Thomas Marcussen,Lise Heier,Anne K Brysting et al.
Thomas Marcussen et al.
Allopolyploidization accounts for a significant fraction of speciation events in many eukaryotic lineages. However, existing phylogenetic and dating methods require tree-like topologies and are unable to handle the network-like phylogenetic...
Leonardo De Oliveira Martins,Diego Mallo,David Posada
Leonardo De Oliveira Martins
Current phylogenomic data sets highlight the need for species tree methods able to deal with several sources of gene tree/species tree incongruence. At the same time, we need to make most use of all available data. Most species tree methods...
Methods for the quantitative comparison of molecular estimates of clade age and the fossil record [0.03%]
定量比较分子进化钟年龄估计与化石记录的方法学研究
Julia A Clarke,Clint A Boyd
Julia A Clarke
Approaches quantifying the relative congruence, or incongruence, of molecular divergence estimates and the fossil record have been limited. Previously proposed methods are largely node specific, assessing incongruence at particular nodes fo...
Steven Dodsworth,Mark W Chase,Laura J Kelly et al.
Steven Dodsworth et al.
A large proportion of genomic information, particularly repetitive elements, is usually ignored when researchers are using next-generation sequencing. Here we demonstrate the usefulness of this repetitive fraction in phylogenetic analyses, ...
The effects of inference method, population sampling, and gene sampling on species tree inferences: an empirical study in slender salamanders (Plethodontidae: Batrachoseps) [0.03%]
推断方法、群体抽样和基因抽样对物种树推断的影响——基于多足目：Batrachoseps属 slim Salamander的实证研究
Elizabeth L Jockusch,Iñigo Martínez-Solano,Elizabeth K Timpe
Elizabeth L Jockusch
Species tree methods are now widely used to infer the relationships among species from multilocus data sets. Many methods have been developed, which differ in whether gene and species trees are estimated simultaneously or sequentially, and ...
Phylogeny, paleontology, and primates: do incomplete fossils bias the tree of life? [0.03%]
系统发育、古生物学和灵长类动物：不完整的化石是否会偏向生命之树？
David J Pattinson,Richard S Thompson,Aleks K Piotrowski et al.
David J Pattinson et al.
Paleontological systematics relies heavily on morphological data that have undergone decay and fossilization. Here, we apply a heuristic means to assess how a fossil's incompleteness detracts from inferring its phylogenetic relationships. W...
How much information is needed to infer reticulate evolutionary histories? [0.03%]
需要多少信息才能推断出网状进化历史？
Katharina T Huber,Leo Van Iersel,Vincent Moulton et al.
Katharina T Huber et al.
Phylogenetic networks are a generalization of evolutionary trees and are an important tool for analyzing reticulate evolutionary histories. Recently, there has been great interest in developing new methods to construct rooted phylogenetic n...
ModelOMatic: fast and automated model selection between RY, nucleotide, amino acid, and codon substitution models [0.03%]
模型自动生成器（ModelOMatic）：RY、核苷酸、氨基酸和密码子替换模型之间的快速自动选择模型方法
Simon Whelan,James E Allen,Benjamin P Blackburne et al.
Simon Whelan et al.
Molecular phylogenetics is a powerful tool for inferring both the process and pattern of evolution from genomic sequence data. Statistical approaches, such as maximum likelihood and Bayesian inference, are now established as the preferred m...
The unsolved challenge to phylogenetic correlation tests for categorical characters [0.03%]
_categorical_性状的系统发育相关性检验面临的难题还未解决
Wayne P Maddison,Richard G FitzJohn
Wayne P Maddison
Declining rates of species described per taxonomist: slowdown of progress or a side-effect of improved quality in taxonomy? [0.03%]
分类学家描述的每种物种的下降率：进展放缓还是税收改善的副作用？
George Sangster,Jolanda A Luksenburg
George Sangster