MEGA6: Molecular Evolutionary Genetics Analysis Version 6.0
TLDR
An advanced version of the Molecular Evolutionary Genetics Analysis software, which currently contains facilities for building sequence alignments, inferring phylogenetic histories, and conducting molecular evolutionary analysis, is released, which enables the inference of timetrees, as it implements the RelTime method for estimating divergence times for all branching points in a phylogeny.Abstract:
We announce the release of an advanced version of the Molecular Evolutionary Genetics Analysis (MEGA) software, which currently contains facilities for building sequence alignments, inferring phylogenetic histories, and conducting molecular evolutionary analysis. In version 6.0, MEGA now enables the inference of timetrees, as it implements the RelTime method for estimating divergence times for all branching points in a phylogeny. A new Timetree Wizard in MEGA6 facilitates this timetree inference by providing a graphical user interface (GUI) to specify the phylogeny and calibration constraints step-by-step. This version also contains enhanced algorithms to search for the optimal trees under evolutionary criteria and implements a more advanced memory management that can double the size of sequence data sets to which MEGA can be applied. Both GUI and command-line versions of MEGA6 can be downloaded from www.megasoftware.net free of charge.read more
Citations
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Journal ArticleDOI
Phylogeny of saprobic microfungi from Southern Europe.
Margarita Hernández-Restrepo,Josepa Gené,Rafael F. Castañeda-Ruiz,Julio Mena-Portales,Pedro W. Crous,Pedro W. Crous,Josep Guarro +6 more
TL;DR: Four new monotypic orders with their respective families are proposed here and one new order and three families are introduced here to accommodate orphan taxa, viz.
Journal ArticleDOI
Emergence of a novel equine-like G3P[8] inter-genogroup reassortant rotavirus strain associated with gastroenteritis in Australian children.
TL;DR: In this paper, a novel equine-like G3P[8] rotavirus was identified as the dominant strain in Australian children with severe rotovirus gastroenteritis, and full genome analysis demonstrated that the strain was an inter-genogroup reassortant, containing an equine like G3 VP7, a P[8]- VP4 and a genogroup 2 backbone I2-R2-C2-M2-A2-N2-T2-E2-H2.
Book ChapterDOI
Inferring orthology and paralogy.
TL;DR: An overview of the methods used to infer orthology and paralogy can be found in this article, where both graph-based and tree-based approaches are surveyed, and the authors discuss conceptual differences among the various orthology inference methods and databases and examine the difficult issue of verifying and benchmarking orthology predictions.
Journal ArticleDOI
Chloroplast genomic data provide new and robust insights into the phylogeny and evolution of the Ranunculaceae
Wei Zhai,Xiaoshan Duan,Rui Zhang,Chunce Guo,Lin Li,Guixia Xu,Hongyan Shan,Hongzhi Kong,Hongzhi Kong,Yi Ren +9 more
TL;DR: It is hypothesize that global warming and the associated decrease in the type and number of animal pollinators may have been the main reason why taxa with highly elaborate petals as well as those without petal were generated during each of the two waves of radiation.
Journal ArticleDOI
An integrated (electro- and bio-oxidation) approach for remediation of industrial wastewater containing azo-dyes: Understanding the degradation mechanism and toxicity assessment.
TL;DR: Results confirm the capability of the proposed hybrid oxidation scheme for the remediation of textile wastewater, and it is likely that azo group stripping and oxidative cleavage of dyes occur due to the nucleophilic attack of active chlorine species during electro-oxidation.
References
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Journal ArticleDOI
MEGA5: Molecular Evolutionary Genetics Analysis using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods
Koichiro Tamura,Daniel S. Peterson,Nicholas Peterson,Glen Stecher,Masatoshi Nei,Sudhir Kumar +5 more
TL;DR: The newest addition in MEGA5 is a collection of maximum likelihood (ML) analyses for inferring evolutionary trees, selecting best-fit substitution models, inferring ancestral states and sequences, and estimating evolutionary rates site-by-site.
Journal ArticleDOI
MEGA3: Integrated software for Molecular Evolutionary Genetics Analysis and sequence alignment
TL;DR: An overview of the statistical methods, computational tools, and visual exploration modules for data input and the results obtainable in MEGA is provided.
Book
The Neutral Theory of Molecular Evolution
TL;DR: The neutral theory as discussed by the authors states that the great majority of evolutionary changes at the molecular level are caused not by Darwinian selection but by random drift of selectively neutral mutants, which has caused controversy ever since.
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