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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Reconstructing the genetic history of late Neanderthals
Mateja Hajdinjak,Qiaomei Fu,Qiaomei Fu,Alexander Hübner,Martin Petr,Fabrizio Mafessoni,Steffi Grote,Pontus Skoglund,Vagheesh Narasimham,Hélène Rougier,Isabelle Crevecoeur,Patrick Semal,Marie Soressi,Sahra Talamo,Jean-Jacques Hublin,Ivan Gušić,Željko Kućan,Pavao Rudan,Liubov V. Golovanova,Vladimir B. Doronichev,Cosimo Posth,Johannes Krause,Petra Korlević,Sarah Nagel,Birgit Nickel,Montgomery Slatkin,Nick Patterson,Nick Patterson,David Reich,David Reich,David Reich,Kay Prüfer,Matthias Meyer,Svante Pääbo,Janet Kelso +34 more
TL;DR: It is found that the bulk of Neanderthal gene flow into early modern humans originated from one or more source populations that diverged from the Neanderthals that were studied here at least 70,000 years ago, but after they split from a previously sequenced Neanderthal from Siberia around 150,000 year ago.
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Redefining Ceratocystis and allied genera
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Isolation of infectious Zika virus from saliva and prolonged viral RNA shedding in a traveller returning from the Dominican Republic to Italy, January 2016
Luisa Barzon,Monia Pacenti,Alessandro Berto,Alessandro Sinigaglia,Elisa Franchin,Enrico Lavezzo,Pierluigi Brugnaro,Giorgio Palù +7 more
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ABC-F Proteins Mediate Antibiotic Resistance through Ribosomal Protection
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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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