Phylogenetic tree instability after taxon addition: empirical frequency, predictability, and consequences for online inference [0.03%]
加 taxa 对系统树稳定性的影响：发生频率、可预测性及对在线推断的后果
Lena Collienne,Mary Barker,Marc A Suchard et al.
Lena Collienne et al.
Online phylogenetic inference methods add sequentially arriving sequences to an inferred phylogeny without the need to recompute the entire tree from scratch. Some online method implementations exist already, but there remains concern that ...
A Phylogenomic Backbone for Acoelomorpha Inferred from Transcriptomic Data [0.03%]
基于转录组数据推断原口动物的系统发育骨架
Samuel Abalde,Ulf Jondelius
Samuel Abalde
Xenacoelomorpha are mostly microscopic, morphologically simple worms, lacking many structures typical of other bilaterians. Xenacoelomorphs -which include three main groups: Acoela, Nemertodermatida, and Xenoturbella- have been proposed to ...
Kate Truman,Timothy G Vaughan,Alex Gavryushkin et al.
Kate Truman et al.
Time-dependent birth-death sampling models have been used in numerous studies for inferring past evolutionary dynamics in different biological contexts, e.g. speciation and extinction rates in macroevolutionary studies, or effective reprodu...
Complex Models of Sequence Evolution Improve Fit, but not Gene Tree Discordance, for Tetrapod Mitogenomes [0.03%]
复杂的序列进化模型可以提高四足动物线粒体基因组的适应性，但不能解释基因树分歧现象
Benjamin S Toups,Robert C Thomson,Jeremy M Brown
Benjamin S Toups
Variation in gene tree estimates is widely observed in empirical phylogenomic data and is often assumed to be the result of biological processes. However, a recent study using tetrapod mitochondrial genomes to control for biological sources...
Inference of Phylogenetic Networks from Sequence Data using Composite Likelihood [0.03%]
基于复合似然的序列数据谱系网络推断
Sungsik Kong,David L Swofford,Laura S Kubatko
Sungsik Kong
While phylogenies have been essential in understanding how species evolve, they do not adequately describe some evolutionary processes. For instance, hybridization, a common phenomenon where interbreeding between two species leads to format...
Assessing the Adequacy of Morphological Models using Posterior Predictive Simulations [0.03%]
用事后预测模拟评估形态模型的有效性
Laura P A Mulvey,Michael R May,Jeremy M Brown et al.
Laura P A Mulvey et al.
Reconstructing the evolutionary history of different groups of organisms provides insight into how life originated and diversified on Earth. Phylogenetic trees are commonly used to estimate this evolutionary history. Within Bayesian phyloge...
Phylogenomics of Bivalvia Using Ultraconserved Elements (UCEs) Reveal New Topologies for Pteriomorphia and Imparidentia [0.03%]
基于超保守元件的软件动物瓣鳃纲系统发生基因组学研究重建珍珠贝纲和蚌纲的新系统树
Yi-Xuan Li,Jack Chi-Ho Ip,Chong Chen et al.
Yi-Xuan Li et al.
Despite significant advances in phylogenetics over the past decades, the deep relationships within Bivalvia (phylum Mollusca) remain inconclusive. Previous efforts based on morphology or several genes have failed to resolve many key nodes i...
The limits of the metapopulation: Lineage fragmentation in a widespread terrestrial salamander (Plethodon cinereus) [0.03%]
广泛分布的陆生红腹臭蛙（Plethodon cinereus）中的谱系片段化：元种群的局限性
Brian P Waldron,Emily F Watts,Donald J Morgan et al.
Brian P Waldron et al.
In vicariant species formation, divergence results primarily from periods of allopatry and restricted gene flow. Widespread species harboring differentiated, geographically distinct sublineages offer a window into what may be a common mode ...
Hierarchical Heuristic Species Delimitation Under the Multispecies Coalescent Model with Migration [0.03%]
含迁移的多层次启发式多物种谱系共祖模型下的物种界定问题研究
Daniel Kornai,Xiyun Jiao,Jiayi Ji et al.
Daniel Kornai et al.
The multispecies coalescent (MSC) model accommodates genealogical fluctuations across the genome and provides a natural framework for comparative analysis of genomic sequence data from closely related species to infer the history of species...
Phylogenetic Biogeography Inference Using Dynamic Paleogeography Models and Explicit Geographic Ranges [0.03%]
基于动态古地理模型和具体地理位置的进化生物地理推断
J Salvador Arias
J Salvador Arias
To model distribution ranges, the most popular methods of phylogenetic biogeography divide Earth into a handful of predefined areas. Other methods use explicit geographic ranges, but unfortunately, these methods assume a static Earth, ignor...