Basanta Khakurel,Sebastian Höhna
Basanta Khakurel
The rate of evolution of a single morphological character is not homogeneous across the phylogeny and this rate heterogeneity varies between morphological characters. However, traditional models of morphological character evolution often as...
Multiple Dating Methods and Insights from the Fossil Record Reveal that Bark Beetles Predate the Angiosperm Terrestrial Revolution [0.03%]
多种测定方法和化石记录的见解表明， bark beetle起源于被子植物陆地革命之前
Jules Ferreira,Bjarte H Jordal,Fabien L Condamine et al.
Jules Ferreira et al.
Estimating the age of a given clade is not trivial. Most dating studies rely on a node dating approach, which is highly sensitive to fossil placement uncertainties. A perfect example of that can be found in bark beetles (Curculionidae: Scol...
Integrating fossils samples with heterogeneous diversification rates: a combined Multi-Type Fossilized Birth-Death model [0.03%]
结合异质分化率的化石样本：多类型化石化生灭模型的联合分析
Joëlle Barido-Sottani,Héléne Morlon
Joëlle Barido-Sottani
Birth-death models are widely used to describe the diversification process which leads to the observed species and phylogenies. When integrated into Bayesian phylogenetic inference, birth-death models allow the joint inference of the phylog...
Comparing partition and mixture models with akaike information criteria [0.03%]
利用.akaike信息标准比较数据的分区模型和混合模型
Edward Susko,Robert Lanfear,Andrew J Roger
Edward Susko
Sophisticated phylogenetic models often include mixture and/or partition model components. It was recently noted that information criteria tend to favour partition models over mixture models even in some cases where the latter are misspecif...
Phylogenetic Accuracy Under Non-Stationary and Non-Homogeneous Conditions: A Simulation Study [0.03%]
非平稳性和非齐次条件下的系统发生准确性：一项仿真研究
Suha Naser-Khdour,Bui Quang Minh,Robert Lanfear
Suha Naser-Khdour
Phylogenetic inference typically assumes that the data has evolved under Stationary, Reversible and Homogeneous (SRH) conditions. Many empirical and simulation studies have shown that assuming SRH conditions can lead to significant errors i...
Synergizing Bayesian and Heuristic Approaches: D-BPP Uncovers Ghost Introgression in Panthera and Thuja [0.03%]
结合贝叶斯和启发式方法：D-BPP在豹属和黄杉中发现幽灵杂交痕迹
Yang Yang,Xiao-Xu Pang,Ya-Mei Ding et al.
Yang Yang et al.
Hybridization involving extinct or unsampled ("ghost") lineages profoundly influences species' evolutionary histories, but detecting such introgression remains methodologically challenging. We introduce D-BPP, a framework that integrates th...
The Dayhoff Exchange Score: A new metric to quantify entropic site saturation in amino acid datasets prior to phylogenetic analysis [0.03%]
一种新的度量标准——Dayhoff得分：用于表征氨基酸序列数据集中位点的熵值大小及进行系统发生分析之前的数据集饱和度评估方法
James F Fleming,Torsten Hugo Struck
James F Fleming
Entropic site saturation is a persistent problem in phylogenetic analyses, where it can hinder the accuracy of topology reconstruction. It is fundamentally caused by large amounts of independent change along branches, causing the model to b...
Using gene trees with lineage-specific duplicates for phylogenetic inference mitigates the effects of long-branch attraction [0.03%]
利用含有谱系特异性重复基因的基因树进行系统发育推断可减轻长枝吸引效应的影响
Megan L Smith,Matthew W Hahn
Megan L Smith
Traditionally, the inference of species trees has relied on orthologs, or genes related through speciation events, to the exclusion of paralogs, or genes related through duplication events. This has led to a focus on using only gene familie...
Phylotranscriptomic analyses uncover the evolutionary history and asymmetric diversification patterns of the wheat tribe [0.03%]
系 transcriptome 分析揭示小麦族的进化历史及其不对称多样化模式
Li-Na Sha,Hao Yan,Cao Deng et al.
Li-Na Sha et al.
The wheat tribe Triticeae, widely known for its economic importance, is a species-diverse and polyploid-rich group in Poaceae. However, despite decades of intensive efforts, the phylogenetic relationships, genome origins, and diversificatio...
Unravelling complex hybrid and polyploid evolutionary relationships using phylogenetic placement of homologous gene copies from target enrichment data [0.03%]
利用目标富集数据的同源基因拷贝的系统发育定位解开复杂的杂交和多倍体现象间的进化关系
Nora Walden,Christiane Kiefer,Marcus A Koch
Nora Walden
Phylogenomic datasets comprising hundreds of genes have become the standard for plant systematics and phylogenetics. However, large-scale phylogenomic studies often exclude polyploids and hybrids due to the challenges in assessing the origi...