Multilocus Phylogeny of the Afrotropical Freshwater Crab Fauna Reveals Historical Drainage Connectivity and Transoceanic Dispersal Since the Eocene [0.03%]
基于非洲淡水蟹类的多基因组系统发育探讨历史水系连通性和始新世以来的跨大洋扩散事件
Savel R Daniels,Ethel E Phiri,Sebastian Klaus et al.
Savel R Daniels et al.
Phylogenetic reconstruction, divergence time estimations and ancestral range estimation were undertaken for 66% of the Afrotropical freshwater crab fauna (Potamonautidae) based on four partial DNA loci (12S rRNA, 16S rRNA, cytochrome oxidas...
Multilocus species trees show the recent adaptive radiation of the mimetic heliconius butterflies [0.03%]
多基因座位物种树显示了模拟箭毒蛙近期适应性辐射的 heelconius 蝴蝶分类群
Krzysztof M Kozak,Niklas Wahlberg,Andrew F E Neild et al.
Krzysztof M Kozak et al.
Müllerian mimicry among Neotropical Heliconiini butterflies is an excellent example of natural selection, associated with the diversification of a large continental-scale radiation. Some of the processes driving the evolution of mimicry ri...
Circumstances in which parsimony but not compatibility will be provably misleading [0.03%]
当简约法但不是相容性法会误导人的状况下的证明性理论研究
Robert W Scotland,Mike Steel
Robert W Scotland
Phylogenetic methods typically rely on an appropriate model of how data evolved in order to infer an accurate phylogenetic tree. For molecular data, standard statistical methods have provided an effective strategy for extracting phylogeneti...
Chris Whidden,Frederick A Matsen th
Chris Whidden
In order to gain an understanding of the effectiveness of phylogenetic Markov chain Monte Carlo (MCMC), it is important to understand how quickly the empirical distribution of the MCMC converges to the posterior distribution. In this articl...
Ancestral state reconstruction, rate heterogeneity, and the evolution of reptile viviparity [0.03%]
重建始态、变化率异速与爬行类动物胎生的进化
Benedict King,Michael S Y Lee
Benedict King
Virtually all models for reconstructing ancestral states for discrete characters make the crucial assumption that the trait of interest evolves at a uniform rate across the entire tree. However, this assumption is unlikely to hold in many s...
Assignment of homoeologs to parental genomes in allopolyploids for species tree inference, with an example from Fumaria (papaveraceae) [0.03%]
基于同源染色体的父母本基因组分配在种树推断中的应用——以紫堇属（罂粟科）为例
Yann J K Bertrand,Anne-Cathrine Scheen,Thomas Marcussen et al.
Yann J K Bertrand et al.
There is a rising awareness that species trees are best inferred from multiple loci while taking into account processes affecting individual gene trees, such as substitution model error (failure of the model to account for the complexity of...
Delimiting Species-Poor Data Sets using Single Molecular Markers: A Study of Barcode Gaps, Haplowebs and GMYC [0.03%]
利用单一分子标记界定物种稀缺数据集：条形码差距、单倍体型网络和GMYC分析研究
Simon Dellicour,Jean-François Flot
Simon Dellicour
Most single-locus molecular approaches to species delimitation available to date have been designed and tested on data sets comprising at least tens of species, whereas the opposite case (species-poor data sets for which the hypothesis that...
Daniel L Rabosky,Emma E Goldberg
Daniel L Rabosky
Species richness varies widely across the tree of life, and there is great interest in identifying ecological, geographic, and other factors that affect rates of species proliferation. Recent methods for explicitly modeling the relationship...
Deflating trees: improving Bayesian branch-length estimates using informed priors [0.03%]
改进分支长度的贝叶斯估计方法：使用知情先验减少系统树的偏差
Bradley J Nelson,John J Andersen,Jeremy M Brown
Bradley J Nelson
Prior distributions can have a strong effect on the results of Bayesian analyses. However, no general consensus exists for how priors should be set in all circumstances. Branch-length priors are of particular interest for phylogenetics, bec...
Paul O Lewis,Mark T Holder,David L Swofford
Paul O Lewis
Phycas is open source, freely available Bayesian phylogenetics software written primarily in C++ but with a Python interface. Phycas specializes in Bayesian model selection for nucleotide sequence data, particularly the estimation of margin...