Estimating Phylogenies from Shape and Similar Multidimensional Data: Why It Is Not Reliable [0.03%]
从形状和类似多维数据估计谱系为什么不可靠
Ceferino Varón-González,Simon Whelan,Christian Peter Klingenberg
Ceferino Varón-González
In recent years, there has been controversy whether multidimensional data such as geometric morphometric data or information on gene expression can be used for estimating phylogenies. This study uses simulations of evolution in multidimensi...
Xiyun Jiao,Tomáš Flouri,Bruce Rannala et al.
Xiyun Jiao et al.
Recent analyses of genomic sequence data suggest cross-species gene flow is common in both plants and animals, posing challenges to species tree estimation. We examine the levels of gene flow needed to mislead species tree estimation with t...
Hierarchical Hybrid Enrichment: Multitiered Genomic Data Collection Across Evolutionary Scales, With Application to Chorus Frogs (Pseudacris) [0.03%]
分层混合增强：跨进化尺度的多级基因组数据收集及其在合唱蛙（Pseudacris）中的应用
Sarah E Banker,Alan R Lemmon,Alyssa Bigelow Hassinger et al.
Sarah E Banker et al.
Determining the optimal targets of genomic subsampling for phylogenomics, phylogeography, and population genomics remains a challenge for evolutionary biologists. Of the available methods for subsampling the genome, hybrid enrichment (seque...
Interdependent Phenotypic and Biogeographic Evolution Driven by Biotic Interactions [0.03%]
由生物相互作用驱动的互依表型和生物地理演化
Ignacio Quintero,Michael J Landis
Ignacio Quintero
Biotic interactions are hypothesized to be one of the main processes shaping trait and biogeographic evolution during lineage diversification. Theoretical and empirical evidence suggests that species with similar ecological requirements eit...
Phylogenetic Systematics and Evolution of the Spider Infraorder Mygalomorphae Using Genomic Scale Data [0.03%]
基于基因组规模数据的蜘蛛总目亚 infraorder Mygalomorphae 的系统发育和进化研究
Vera Opatova,Chris A Hamilton,Marshal Hedin et al.
Vera Opatova et al.
The infraorder Mygalomorphae is one of the three main lineages of spiders comprising over 3000 nominal species. This ancient group has a worldwide distribution that includes among its ranks large and charismatic taxa such as tarantulas, tra...
Tom Carruthers,Michael J Sanderson,Robert W Scotland
Tom Carruthers
Rate variation adds considerable complexity to divergence time estimation in molecular phylogenies. Here, we evaluate the impact of lineage-specific rates-which we define as among-branch-rate-variation that acts consistently across the enti...
Estimating Diversification Rates on Incompletely Sampled Phylogenies: Theoretical Concerns and Practical Solutions [0.03%]
关于不完全取样的系统树估计分化率：理论关注和实用方案
Jonathan Chang,Daniel L Rabosky,Michael E Alfaro
Jonathan Chang
Molecular phylogenies are a key source of information about the tempo and mode of species diversification. However, most empirical phylogenies do not contain representatives of all species, such that diversification rates are typically esti...
Craniodental and Postcranial Characters of Non-Avian Dinosauria Often Imply Different Trees [0.03%]
颅骨齿列和非鸟恐龙的后颅骨特征常意味不同的系统树
Yimeng Li,Marcello Ruta,Matthew A Wills
Yimeng Li
Despite the increasing importance of molecular sequence data, morphology still makes an important contribution to resolving the phylogeny of many groups, and is the only source of data for most fossils. Most systematists sample morphologica...
Phylogenetic Conflicts, Combinability, and Deep Phylogenomics in Plants [0.03%]
植物谱系冲突、可组合性和深度谱系基因组学
Stephen A Smith,Nathanael Walker-Hale,Joseph F Walker et al.
Stephen A Smith et al.
Studies have demonstrated that pervasive gene tree conflict underlies several important phylogenetic relationships where different species tree methods produce conflicting results. Here, we present a means of dissecting the phylogenetic sig...
Christopher T Jones,Noor Youssef,Edward Susko et al.
Christopher T Jones et al.
A central objective in biology is to link adaptive evolution in a gene to structural and/or functional phenotypic novelties. Yet most analytic methods make inferences mainly from either phenotypic data or genetic data alone. A small number ...