A Simulation-Based Evaluation of Tip-Dating Under the Fossilized Birth-Death Process [0.03%]
基于化石化诞生灭绝过程的模拟提示定年法评价研究
Arong Luo,David A Duchêne,Chi Zhang et al.
Arong Luo et al.
Bayesian molecular dating is widely used to study evolutionary timescales. This procedure usually involves phylogenetic analysis of nucleotide sequence data, with fossil-based calibrations applied as age constraints on internal nodes of the...
Analysis of Spounaviruses as a Case Study for the Overdue Reclassification of Tailed Phages [0.03%]
以Sponavirus为例分析有尾噬菌体 overdue reclassification 的必要性
Jakub Barylski,François Enault,Bas E Dutilh et al.
Jakub Barylski et al.
Tailed bacteriophages are the most abundant and diverse viruses in the world, with genome sizes ranging from 10 kbp to over 500 kbp. Yet, due to historical reasons, all this diversity is confined to a single virus order-Caudovirales, compos...
Phylogenomic Relationships of Diploids and the Origins of Allotetraploids in Dactylorhiza (Orchidaceae) [0.03%]
药用兰花属植物二倍体的系统发育关系及其同源四倍体的起源
Marie K Brandrud,Juliane Baar,Maria T Lorenzo et al.
Marie K Brandrud et al.
Disentangling phylogenetic relationships proves challenging for groups that have evolved recently, especially if there is ongoing reticulation. Although they are in most cases immediately isolated from diploid relatives, sets of sibling all...
The Effect of Fossil Sampling on the Estimation of Divergence Times with the Fossilized Birth-Death Process [0.03%]
化石取样对含化石诞生死亡过程的分歧时间估算的影响分析
Joseph E O&#x;Reilly,Philip C J Donoghue
Joseph E O&#x;Reilly
Timescales are of fundamental importance to evolutionary biology as they facilitate hypothesis tests of historical evolutionary processes. Through the incorporation of fossil occurrence data, the fossilized birth-death (FBD) process provide...
Statistical Modeling of Distribution Patterns: A Markov Random Field Implementation and Its Application on Areas of Endemism [0.03%]
分布模式的统计模型及其应用于特有区分析：马尔可夫随机场方法实现与应用研究
Nelson R Salinas,Ward C Wheeler
Nelson R Salinas
A statistical framework to infer areas of endemism from geographic distributions is proposed. This novel method is based on hidden Markov random fields (HMRFs), a type of undirected graph model commonly used in computer vision. This framewo...
Alberto Pascual-García,Miguel Arenas,Ugo Bastolla
Alberto Pascual-García
The molecular clock hypothesis, which states that substitutions accumulate in protein sequences at a constant rate, plays a fundamental role in molecular evolution but it is violated when selective or mutational processes vary with time. Su...
Statistical Comparison of Trait-Dependent Biogeographical Models Indicates That Podocarpaceae Dispersal Is Influenced by Both Seed Cone Traits and Geographical Distance [0.03%]
性状依赖生物地理模型的统计比较表明银杏松属扩散既受种子圆锥性状影响又受地理位置影响
Kristina V Klaus,Nicholas J Matzke
Kristina V Klaus
The ability of lineages to disperse long distances over evolutionary timescales may be influenced by the gain or loss of traits adapted to enhance local, ecological dispersal. For example, some species in the southern conifer family Podocar...
Probabilistic Species Tree Distances: Implementing the Multispecies Coalescent to Compare Species Trees Within the Same Model-Based Framework Used to Estimate Them [0.03%]
基于同一模型估算系谱的多元物种共祖方法比较种系树的概率距离法
Richard H Adams,Todd A Castoe
Richard H Adams
Despite the ubiquitous use of statistical models for phylogenomic and population genomic inferences, this model-based rigor is rarely applied to post hoc comparison of trees. In a recent study, Garba et al. derived new methods for measuring...
Model Choice, Missing Data, and Taxon Sampling Impact Phylogenomic Inference of Deep Basidiomycota Relationships [0.03%]
模型选择、缺失数据和类团取样影响伞菌门深层演化关系的基因组系统发生重建
Arun N Prasanna,Daniel Gerber,Teeratas Kijpornyongpan et al.
Arun N Prasanna et al.
Resolving deep divergences in the tree of life is challenging even for analyses of genome-scale phylogenetic data sets. Relationships between Basidiomycota subphyla, the rusts and allies (Pucciniomycotina), smuts and allies (Ustilaginomycot...
Whole Genome Shotgun Phylogenomics Resolves the Pattern and Timing of Swallowtail Butterfly Evolution [0.03%]
全基因组从头测序系统发育基因组学解析 swallowtail butterfly 的演化模式和时间表
Rémi Allio,Céline Scornavacca,Benoit Nabholz et al.
Rémi Allio et al.
Evolutionary relationships have remained unresolved in many well-studied groups, even though advances in next-generation sequencing and analysis, using approaches such as transcriptomics, anchored hybrid enrichment, or ultraconserved elemen...