Dirk Ahrens,Tomochika Fujisawa,Hans-Joachim Krammer et al.
Dirk Ahrens et al.
DNA-based species delimitation may be compromised by limited sampling effort and species rarity, including "singleton" representatives of species, which hampers estimates of intra- versus interspecies evolutionary processes. In a case study...
Detecting the Anomaly Zone in Species Trees and Evidence for a Misleading Signal in Higher-Level Skink Phylogeny (Squamata: Scincidae) [0.03%]
物种树中的异常区检测以及关于skink高级谱系演化误导信号的证据（鳞足目：Skincidae）
Charles W Linkem,Vladimir N Minin,Adam D Leaché
Charles W Linkem
The anomaly zone, defined by the presence of gene tree topologies that are more probable than the true species tree, presents a major challenge to the accurate resolution of many parts of the Tree of Life. This discrepancy can result from c...
Modeling Character Change Heterogeneity in Phylogenetic Analyses of Morphology through the Use of Priors [0.03%]
通过使用先验模型在形态进化分析中模拟字符变化异质性
April M Wright,Graeme T Lloyd,David M Hillis
April M Wright
The Mk model was developed for estimating phylogenetic trees from discrete morphological data, whether for living or fossil taxa. Like any model, the Mk model makes a number of assumptions. One assumption is that transitions between charact...
Machine Learning Biogeographic Processes from Biotic Patterns: A New Trait-Dependent Dispersal and Diversification Model with Model Choice By Simulation-Trained Discriminant Analysis [0.03%]
从生物格局学习机器生物地理过程：一个新的基于性状的扩散和多样化模型及其通过模拟训练的判别分析模型选择方法
Jeet Sukumaran,Evan P Economo,L Lacey Knowles
Jeet Sukumaran
Current statistical biogeographical analysis methods are limited in the ways ecology can be related to the processes of diversification and geographical range evolution, requiring conflation of geography and ecology, and/or assuming ecologi...
Late Glacial Demographic Expansion Motivates a Clock Overhaul for Population Genetics [0.03%]
末次冰期的人口扩张促使种群遗传学的“时钟”重新校准
Thierry B Hoareau
Thierry B Hoareau
The molecular clock hypothesis is fundamental in evolutionary biology as by assuming constancy of the molecular rate it provides a timeframe for evolution. However, increasing evidence shows time dependence of inferred molecular rates with ...
The Species versus Subspecies Conundrum: Quantitative Delimitation from Integrating Multiple Data Types within a Single Bayesian Approach in Hercules Beetles [0.03%]
种类与亚种的困境：在单一贝叶斯方法中整合多种数据类型以确定赫丘利金龟的量化界限
Jen-Pan Huang,L Lacey Knowles
Jen-Pan Huang
With the recent attention and focus on quantitative methods for species delimitation, an overlooked but equally important issue regards what has actually been delimited. This study investigates the apparent arbitrariness of some taxonomic d...
Eric Lewitus,Helene Morlon
Eric Lewitus
Phylogenetic trees are central to many areas of biology, ranging from population genetics and epidemiology to microbiology, ecology, and macroevolution. The ability to summarize properties of trees, compare different trees, and identify dis...
Matthew J Phillips
Matthew J Phillips
In modern evolutionary divergence analysis the role of geological information extends beyond providing a timescale, to informing molecular rate variation across the tree. Here I consider the implications of this development. I use fossil ca...
Maximum Likelihood Phylogenetic Inference is Consistent on Multiple Sequence Alignments, with or without Gaps [0.03%]
最大似然法系基因组系统发生分析在有无空位的多重序列对齐中是一致的
Jakub Truszkowski,Nick Goldman
Jakub Truszkowski
We prove that maximum likelihood phylogenetic inference is consistent on gapped multiple sequence alignments (MSAs) as long as substitution rates across each edge are greater than zero, under mild assumptions on the structure of the alignme...
Cryptic Species or Inadequate Taxonomy? Implementation of 2D Geometric Morphometrics Based on Integumental Organs as Landmarks for Delimitation and Description of Copepod Taxa [0.03%]
隐种还是分类不足？基于 integumental 器官作为地标的二维几何形态计量法在水溞类分类单元的划分和描述中的应用实施研究
Tomislav Karanovic,Marko Djurakic,Stefan M Eberhard
Tomislav Karanovic
Discovery of cryptic species using molecular tools has become common in many animal groups but it is rarely accompanied by morphological revision, creating ongoing problems in taxonomy and conservation. In copepods, cryptic species have bee...