How to Render Species Comparable Taxonomic Units Through Deep Time: A Case Study on Intraspecific Osteological Variability in Extant and Extinct Lacertid Lizards [0.03%]
如何在漫长的地质时间中使物种成为可比较的分类单元：现生及灭绝的石龙子科蜥蜴种内骨骼变异的案例研究
Emanuel Tschopp,James G Napoli,Lukardis C M Wencker et al.
Emanuel Tschopp et al.
Generally, the species is considered to be the only naturally occurring taxon. However, species recognized and defined using different species delimitation criteria cannot readily be compared, impacting studies of biodiversity through Deep ...
Divergent Processes Drive Parallel Evolution in Marine and Freshwater Fishes [0.03%]
发散的过程推动了海洋鱼和淡水鱼的平行进化
S T Friedman,M L Collyer,S A Price et al.
S T Friedman et al.
Evolutionary comparisons between major environmental divides, such as between marine and freshwater systems, can reveal the fundamental processes governing diversification dynamics. Although processes may differ due to the different scales ...
Catalina Ramírez-Portilla,Andrew H Baird,Peter F Cowman et al.
Catalina Ramírez-Portilla et al.
Distinguishing coral species is not only crucial for physiological, ecological, and evolutionary studies but also to enable effective management of threatened reef ecosystems. However, traditional hypotheses that delineate coral species bas...
Identification of Species by Combining Molecular and Morphological Data Using Convolutional Neural Networks [0.03%]
通过结合分子和形态数据使用卷积神经网络进行物种鉴定
Bing Yang,Zhenxin Zhang,Cai-Qing Yang et al.
Bing Yang et al.
Integrative taxonomy is central to modern taxonomy and systematic biology, including behavior, niche preference, distribution, morphological analysis, and DNA barcoding. However, decades of use demonstrate that these methods can face challe...
Excluding Loci With Substitution Saturation Improves Inferences From Phylogenomic Data [0.03%]
排除 substitutionsaturation 位点可以改善由系统基因组数据做出的推断
David A Duchêne,Niklas Mather,Cara Van Der Wal et al.
David A Duchêne et al.
The historical signal in nucleotide sequences becomes eroded over time by substitutions occurring repeatedly at the same sites. This phenomenon, known as substitution saturation, is recognized as one of the primary obstacles to deep-time ph...
A Likelihood-Ratio Test for Lumpability of Phylogenetic Data: Is the Markovian Property of an Evolutionary Process Retained in Recoded DNA? [0.03%]
核糖体减约的似然比检验：遗传编码DNA的马尔可夫性在密码子重新编码后得以保留吗？
Victor A Vera-Ruiz,John Robinson,Lars S Jermiin
Victor A Vera-Ruiz
In molecular phylogenetics, it is typically assumed that the evolutionary process for DNA can be approximated by independent and identically distributed Markovian processes at the variable sites and that these processes diverge over the edg...
Robert J Asher,Martin R Smith
Robert J Asher
An unprecedented amount of evidence now illuminates the phylogeny of living mammals and birds on the Tree of Life. We use this tree to measure the phylogenetic value of data typically used in paleontology (bones and teeth) from six data set...
Tae-Kun Seo,Olivier Gascuel,Jeffrey L Thorne
Tae-Kun Seo
Widely used approaches for extracting phylogenetic information from aligned sets of molecular sequences rely upon probabilistic models of nucleotide substitution or amino-acid replacement. The phylogenetic information that can be extracted ...
Investigating Sources of Conflict in Deep Phylogenomics of Vetigastropod Snails [0.03%]
榍石螺科软体动物深部谱系基因组学冲突来源研究
Tauana Junqueira Cunha,James Davis Reimer,Gonzalo Giribet
Tauana Junqueira Cunha
Phylogenetic analyses may suffer from multiple sources of error leading to conflict between genes and methods of inference. The evolutionary history of the mollusc clade Vetigastropoda makes them susceptible to these conflicts, their higher...
DISCO: Species Tree Inference using Multicopy Gene Family Tree Decomposition [0.03%]
DISCO：利用多拷贝基因家族树分解进行物种树推断
James Willson,Mrinmoy Saha Roddur,Baqiao Liu et al.
James Willson et al.
Species tree inference from gene family trees is a significant problem in computational biology. However, gene tree heterogeneity, which can be caused by several factors including gene duplication and loss, makes the estimation of species t...