Improved robustness to gene tree incompleteness, estimation errors, and systematic homology errors with weighted TREE-QMC [0.03%]
改进的加权TREE-QMC对基因树不完整，估计误差和系统同源性误差的鲁棒性提升
Yunheng Han,Erin K Molloy
Yunheng Han
methods are widely used to reconstruct species trees from gene tres while accommodating discordance from incomplete lineage sorting; however, it is increasingly recognized that their accuracy can be negatively impacted by incomplete and/or ...
Recent, Intricate Speciation in Amazonia Uncovered by a Multilayered Genomic Analysis of Tree Squirrels [0.03%]
亚马逊地区树木松鼠多层基因组分析揭示近期复杂的物种形成过程
Edson F Abreu,Joyce R Prado,Jesús E Maldonado et al.
Edson F Abreu et al.
Accurate estimates of species diversity are essential for all biodiversity research. Delimiting species and understanding the underlying processes of speciation are also central components of systematic biology that frame our comprehension ...
C Tomomi Parins-Fukuchi,James G Saulsbury
C Tomomi Parins-Fukuchi
Paleobiologists have long sought to explain how alternative modes of speciation, including budding and bifurcating cladogenesis, shape patterns of evolution. Methods introduced over the past decade have paved the way for a renewed enthusias...
Global Patterns of Taxonomic Uncertainty and its Impacts on Biodiversity Research [0.03%]
分类学不确定性全球模式及其对生物多样性研究的影响
Jhonny J M Guedes,Mario R Moura,Lucas Jardim et al.
Jhonny J M Guedes et al.
Over two million species have been named so far, but many will be invalidated due to redundant descriptions. Undetected invalid species (i.e., synonyms) can impair inferences we make in biodiversity research and hamper the implementation of...
UnFATE: A Comprehensive Probe Set and Bioinformatics Pipeline for Phylogeny Reconstruction and Multilocus Barcoding of Filamentous Ascomycetes (Ascomycota, Pezizomycotina) [0.03%]
UnFATE:用于子囊菌（Sacromycota，Pezizomycotina）系统发育重建和多位点条形码的全面探针组和生物信息学流程
Claudio G Ametrano,Jacob Jensen,H Thorsten Lumbsch et al.
Claudio G Ametrano et al.
The subphylum Pezizomycotina (filamentous ascomycetes) is the largest clade within Ascomycota. Despite the importance of this group of fungi, our understanding of their evolution is still limited due to insufficient taxon sampling. Although...
Xia Hua,Craig Moritz
Xia Hua
Different species concepts and their associated criteria have been used to delimit species boundaries, such as the absence of gene flow for the biological species concept and the presence of morphological distinction for the morphological s...
Dating the bacterial tree of life based on ancient symbiosis [0.03%]
古老的共生关系赋予了细菌的树状生命形态基于古老共生关系的生命之树年代学
Sishuo Wang,Haiwei Luo
Sishuo Wang
Obtaining a timescale for bacterial evolution is crucial to understand early life evolution but is difficult owing to the scarcity of bacterial fossils. Here, we introduce multiple new time constraints to calibrate bacterial evolution based...
Integrating Deep Learning Derived Morphological Traits and Molecular Data for Total-Evidence Phylogenetics: Lessons from Digitized Collections [0.03%]
基于深度学习的形态特征和分子数据的整合在总证据系统发生学中的应用：来自数字化藏品的启示
Roberta Hunt,José L Reyes-Hernández,Josh Jenkins Shaw et al.
Roberta Hunt et al.
Deep learning has previously shown success in automatically generating morphological traits which carry a phylogenetic signal. In this paper we explore combining molecular data with deep learning derived morphological traits from images of ...
David Helekal,Jere Koskela,Xavier Didelot
David Helekal
The vast majority of pathogen phylogenetic studies do not consider the possibility of multiple merger events being present, where a single node of the tree leads to more than two descendent branches. These events are however likely to occur...
Punctuated versus gradual shifts in the multivariate evolutionary process: a test with paired radiations of scincid lizards [0.03%]
种间分化中的进化多变量变化的断续与渐进模式——基于两类草蜥的检验研究
Natasha Stepanova,James D Boyko,Jada Lin et al.
Natasha Stepanova et al.
As lineages become separated in time, they are expected to accumulate mutational (or developmental-genetic) differences that influence the macroevolutionary trajectories of those lineages even under similar environmental conditions. Here, w...