Nicola De Maio,Dominik Schrempf,Carolin Kosiol
Nicola De Maio
Incomplete lineage sorting can cause incongruencies of the overall species-level phylogenetic tree with the phylogenetic trees for individual genes or genomic segments. If these incongruencies are not accounted for, it is possible to incur ...
Resolving Evolutionary Relationships in Closely Related Species with Whole-Genome Sequencing Data [0.03%]
利用全基因组测序数据解析亲缘关系相近物种的进化关系
Alexander Nater,Reto Burri,Takeshi Kawakami et al.
Alexander Nater et al.
Using genetic data to resolve the evolutionary relationships of species is of major interest in evolutionary and systematic biology. However, reconstructing the sequence of speciation events, the so-called species tree, in closely related a...
Phylogenetic ANOVA: The Expression Variance and Evolution Model for Quantitative Trait Evolution [0.03%]
定量性状进化的新表达方差和演化模型：谱系ANOVA方法及其应用研究
Rori V Rohlfs,Rasmus Nielsen
Rori V Rohlfs
A number of methods have been developed for modeling the evolution of a quantitative trait on a phylogeny. These methods have received renewed interest in the context of genome-wide studies of gene expression, in which the expression levels...
Species Selection Favors Dispersive Life Histories in Sea Slugs, but Higher Per-Offspring Investment Drives Shifts to Short-Lived Larvae [0.03%]
物种选择偏爱海洋海兔类扩散的生活史，但较高的每后代投入导致向短寿命幼体的转变
Patrick J Krug,Jann E Vendetti,Ryan A Ellingson et al.
Patrick J Krug et al.
For 40 years, paleontological studies of marine gastropods have suggested that species selection favors lineages with short-lived (lecithotrophic) larvae, which are less dispersive than long-lived (planktotrophic) larvae. Although lecithotr...
The Implications of Stratigraphic Compatibility for Character Integration among Fossil Taxa [0.03%]
化石分类群间层位一致性对性状整合的含义
Peter J Wagner,George F Estabrook
Peter J Wagner
Two characters are stratigraphically compatible if some phylogenies indicate that their combinations (state-pairs) evolved without homoplasy and in an order consistent with the fossil record. Simulations assuming independent character chang...
Ikram Ullah,Joel Sjöstrand,Peter Andersson et al.
Ikram Ullah et al.
Orthology analysis, that is, finding out whether a pair of homologous genes are orthologs - stemming from a speciation - or paralogs - stemming from a gene duplication - is of central importance in computational biology, genome annotation, ...
Exploring Tree-Like and Non-Tree-Like Patterns Using Genome Sequences: An Example Using the Inbreeding Plant Species Arabidopsis thaliana (L.) Heynh [0.03%]
利用基因组序列探索树木状和非树木状模式：以自交植物物种拟南芥（雷尼氏）为例
Noah W M Stenz,Bret Larget,David A Baum et al.
Noah W M Stenz et al.
Genome sequence data contain abundant information about genealogical history, but methods for extracting and interpreting this information are not yet fully developed. We analyzed genome sequences for multiple accessions of the selfing plan...
Detecting Adaptive Evolution in Phylogenetic Comparative Analysis Using the Ornstein-Uhlenbeck Model [0.03%]
利用Ornstein-Uhlenbeck模型在系统发育比较分析中检测适应性演化
Clayton E Cressler,Marguerite A Butler,Aaron A King
Clayton E Cressler
Phylogenetic comparative analysis is an approach to inferring evolutionary process from a combination of phylogenetic and phenotypic data. The last few years have seen increasingly sophisticated models employed in the evaluation of more and...
Vinson P Doyle,Randee E Young,Gavin J P Naylor et al.
Vinson P Doyle et al.
Topological heterogeneity among gene trees is widely observed in phylogenomic analyses and some of this variation is likely caused by systematic error in gene tree estimation. Systematic error can be mitigated by improving models of sequenc...
Andrew R Francis,Mike Steel
Andrew R Francis
A binary phylogenetic network may or may not be obtainable from a tree by the addition of directed edges (arcs) between tree arcs. Here, we establish a precise and easily tested criterion (based on "2-SAT") that efficiently determines wheth...