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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A coupled role for CsMYB75 and CsGSTF1 in anthocyanin hyperaccumulation in purple tea.
Kang Wei,Liyuan Wang,Yazhen Zhang,Li Ruan,Hailin Li,Liyun Wu,Li-Yi Xu,Cheng-Cai Zhang,Xiaogui Zhou,Hao Cheng,Robert Edwards +10 more
TL;DR: In this paper, the role of CsGSTF1 in selective anthocyanin accumulation was investigated in the case of purple tea (Camellia sinensis) and transgenic tobacco (Nicotiana tabacum).
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Comparison of bacterial communities of conventional and A-stage activated sludge systems
Alejandro Gonzalez-Martinez,Alejandro Rodriguez-Sanchez,Tommaso Lotti,Maria Jesus Garcia-Ruiz,Francisco Osorio,Jesús González-López,Mark C.M. van Loosdrecht +6 more
TL;DR: This study shows that bacterial community structure of CAS and A-stage bioreactors are mostly driven by solids retention time (SRT) and hydraulic retentionTime (HRT), as suggested by multivariate redundancy analysis.
Journal ArticleDOI
Virus-host relationships of marine single-celled eukaryotes resolved from metatranscriptomics.
Mohammad Moniruzzaman,Louie L. Wurch,Harriet Alexander,Sonya T. Dyhrman,Christopher J. Gobler,Steven W. Wilhelm +5 more
TL;DR: The use of marine metatranscriptomics to probe virus–host relationships offers a method for screening active viral infections and develops links between viruses and their potential hosts in situ and demonstrates that previously unknown virus– host relationships in marine systems are abundant.
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Plant growth-promoting rhizobacterium Pseudomonas PS01 induces salt tolerance in Arabidopsis thaliana
TL;DR: Pseudomonas PS01 could improve the germination rate of Arabidopsis seeds in 150 mM NaCl and may contribute to sustainable crop production by improving plant growth and/or plant tolerance to abiotic stresses.
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Experimental support that natural selection has shaped the latitudinal distribution of mitochondrial haplotypes in Australian Drosophila melanogaster
TL;DR: The ability of flies to tolerate extreme thermal challenges is affected by sequence variation across mtDNA haplotypes, and that the thermal performance associated with each haplotype corresponds with its latitudinal prevalence, suggesting that standing variation in the mitochondrial genome can be shaped by thermal selection, and could therefore contribute to evolutionary adaptation under climatic stress.
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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