Species-Level Phylogeny and Polyploid Relationships in Hordeum (Poaceae) Inferred by Next-Generation Sequencing and In Silico Cloning of Multiple Nuclear Loci [0.03%]
基于下一代测序和多基因组核位点的农杆菌克隆构建的小麦族山羊草属物种系统发育及多倍体亲缘关系研究
Jonathan Brassac,Frank R Blattner
Jonathan Brassac
Polyploidization is an important speciation mechanism in the barley genus Hordeum. To analyze evolutionary changes after allopolyploidization, knowledge of parental relationships is essential. One chloroplast and 12 nuclear single-copy loci...
Current Methods for Automated Filtering of Multiple Sequence Alignments Frequently Worsen Single-Gene Phylogenetic Inference [0.03%]
当前的多重序列比对自动过滤方法常会恶化单基因系统发育推断
Ge Tan,Matthieu Muffato,Christian Ledergerber et al.
Ge Tan et al.
Phylogenetic inference is generally performed on the basis of multiple sequence alignments (MSA). Because errors in an alignment can lead to errors in tree estimation, there is a strong interest in identifying and removing unreliable parts ...
Toward Synthesizing Our Knowledge of Morphology: Using Ontologies and Machine Reasoning to Extract Presence/Absence Evolutionary Phenotypes across Studies [0.03%]
形态学知识综合的前景：使用本体论和机器推理来提取跨研究的存在/缺失进化表型
T Alexander Dececchi,James P Balhoff,Hilmar Lapp et al.
T Alexander Dececchi et al.
The reality of larger and larger molecular databases and the need to integrate data scalably have presented a major challenge for the use of phenotypic data. Morphology is currently primarily described in discrete publications, entrenched i...
Incompatible Ages for Clearwing Butterflies Based on Alternative Secondary Calibrations [0.03%]
基于替代次要校准的清翼蝴蝶不相容的年龄估算
Ivonne J Garzón-Orduña,Karina L Silva-Brandão,Keith R Willmott et al.
Ivonne J Garzón-Orduña et al.
The recent publication of a time-tree for the plant family Solanaceae (nightshades) provides the opportunity to use independent calibrations to test divergence times previously inferred for the diverse Neotropical butterfly tribe Ithomiini....
Monte Carlo Strategies for Selecting Parameter Values in Simulation Experiments [0.03%]
在模拟实验中选择参数值的蒙特卡罗策略
Jessica W Leigh,David Bryant
Jessica W Leigh
Simulation experiments are used widely throughout evolutionary biology and bioinformatics to compare models, promote methods, and test hypotheses. The biggest practical constraint on simulation experiments is the computational demand, parti...
Michael J Sanderson,Michelle M McMahon,Alexandros Stamatakis et al.
Michael J Sanderson et al.
Terraces are sets of trees with precisely the same likelihood or parsimony score, which can be induced by missing sequences in partitioned multi-locus phylogenetic data matrices. The potentially large set of trees on a terrace can be charac...
V V Goremykin,S V Nikiforova,D Cavalieri et al.
V V Goremykin et al.
Support for Amborella as the sole survivor of an evolutionary lineage that is sister to all other angiosperms comes from positions in DNA multiple-sequence alignments that have a poor fit to time-reversible substitution models. These sites ...
The Challenges of Resolving a Rapid, Recent Radiation: Empirical and Simulated Phylogenomics of Philippine Shrews [0.03%]
解决快速近期辐射的挑战：菲律宾鼩鼱的实证和模拟系统基因组学
Thomas C Giarla,Jacob A Esselstyn
Thomas C Giarla
Phylogenetic relationships in recent, rapid radiations can be difficult to resolve due to incomplete lineage sorting and reliance on genetic markers that evolve slowly relative to the rate of speciation. By incorporating hundreds to thousan...
Heterogeneous Rates of Molecular Evolution and Diversification Could Explain the Triassic Age Estimate for Angiosperms [0.03%]
不同基因的非匀质分子进化率可以解释被子植物三叠纪发源的年代估计结果
Jeremy M Beaulieu,Brian C O&#x;Meara,Peter Crane et al.
Jeremy M Beaulieu et al.
Dating analyses based on molecular data imply that crown angiosperms existed in the Triassic, long before their undisputed appearance in the fossil record in the Early Cretaceous. Following a re-analysis of the age of angiosperms using upda...
Florian M Steiner,Marco Pautasso,Herbert Zettel et al.
Florian M Steiner et al.
Current science evaluation still relies on citation performance, despite criticisms of purely bibliometric research assessments. Biological taxonomy suffers from a drain of knowledge and manpower, with poor citation performance commonly hel...