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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Distinct Characteristics and Complex Evolution of PEDV Strains, North America, May 2013–February 2014
Anastasia N. Vlasova,Douglas Marthaler,Qiuhong Wang,Marie R. Culhane,Kurt Rossow,Albert Rovira,James E. Collins,Linda J. Saif +7 more
TL;DR: Sequence analysis showed heterogeneity among 74 strains and distinct molecular characteristics of highly virulent strains and variants.
Journal ArticleDOI
Multilocus sequence analysis (MLSA) in prokaryotic taxonomy
TL;DR: An overview of the historical development of MLSA is provided and its current application in prokaryotic taxonomy is critically reviewed to provide a perspective for its future use in forthcoming genome-based genotypic taxonomic analyses.
Journal ArticleDOI
Spatiotemporally dynamic, cell-type–dependent premeiotic and meiotic phasiRNAs in maize anthers
TL;DR: Maize phasiRNAs and mammalian piRNAs illustrate putative convergent evolution of small RNAs in male reproduction and share developmental timing, a lack of obvious targets, and an impact on male fertility, suggesting a possible evolutionary convergence.
Journal ArticleDOI
The FLOWERING LOCUS T/TERMINAL FLOWER 1 Gene Family: Functional Evolution and Molecular Mechanisms
TL;DR: The comprehensively survey the conserved and diverse functions of the FT/TFL1 gene family throughout the plant kingdom, summarize new findings regarding the unique evolution of FT in multiple species, and highlight recent work elucidating the molecular mechanisms of these proteins.
Journal ArticleDOI
Bat origins of MERS-CoV supported by bat coronavirus HKU4 usage of human receptor CD26.
Qihui Wang,Jianxun Qi,Yuan Yuan,Yifang Xuan,Pengcheng Han,Yuhua Wan,Wei Ji,Yan Li,Ying Wu,Jianwei Wang,Aikichi Iwamoto,Patrick C. Y. Woo,Kwok-Yung Yuen,Jinghua Yan,Guangwen Lu,George F. Gao +15 more
TL;DR: These findings support a bat origin for MERS-CoV and indicate the need for surveillance of HKU4-related viruses in bats.
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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