Journal ArticleDOI
MEGA2 : Molecular evolutionary genetics analysis software
TLDR
MEGA2 vastly extends the capabilities of MEGA version 1 by facilitating analyses of large datasets, enabling creation and analyses of groups of sequences, and expanding the repertoire of statistical methods for molecular evolutionary studies.Abstract:
Summary: We have developed a new software package, Molecular Evolutionary Genetics Analysis version 2 (MEGA2), for exploring and analyzing aligned DNA or protein sequences from an evolutionary perspective. MEGA2 vastly extends the capabilities of MEGA version 1 by: (1) facilitating analyses of large datasets; (2) enabling creation and analyses of groups of sequences; (3) enabling specification of domains and genes; (4) expanding the repertoire of statistical methods for molecular evolutionary studies; and (5) adding new modules for visual representation of input data and output results on the Microsoft Windows platform. Availability: http://www.megasoftware.net.read more
Citations
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Branched Mitochondrial Electron Transport in the Animalia: Presence of Alternative Oxidase in Several Animal Phyla
TL;DR: It is hypothesized that alternative oxidase is likely widespread in the Animalia and some of the potential role(s) for such a branched respiratory chain are discussed.
Journal ArticleDOI
Searching for Wolbachia (Rickettsiales: Rickettsiaceae) in Mosquitoes (Diptera: Culicidae): Large Polymerase Chain Reaction Survey and New Identifications
TL;DR: An extensive polymerase chain reaction survey was carried out to detect Wolbachia in several species of mosquito belonging to genera involved in the transmission of pathogens, finding five species out of 26 tested have shown to be infected.
Journal ArticleDOI
Purifying Selection and Birth-and-death Evolution in the Histone H4 Gene Family
TL;DR: The long-term evolution of histone H4 genes is examined to determine whether concerted evolution or purifying selection was the major factor for maintaining sequence homogeneity and suggest that the members of this gene family evolve according to the birth-and-death model of evolution under strong purify selection.
Journal ArticleDOI
Genetic variability and population structure of Grapevine leafroll-associated virus 3 isolates.
C. Turturo,Pasquale Saldarelli,Dong Yafeng,Michele Digiaro,Angelantonio Minafra,Vito Nicola Savino,G. P. Martelli +6 more
TL;DR: Estimation of genetic diversity and phylogenetic analysis disclosed the possible existence of vines with mixed infections by diverging sequence variants, showing, in some cases, possible recombination events.
Journal ArticleDOI
CYP2C9 haplotype structure in European American warfarin patients and association with clinical outcomes.
David L. Veenstra,David K. Blough,Mitchell K. Higashi,Frederico M. Farin,Sengkeo Srinouanprachan,Mark J. Rieder,Allan E. Rettie +6 more
TL;DR: The goal of this study was to define the haplotype structure of the cytochrome P450 (CYP) 2C9 gene in a European American population and evaluate associations between CYP2C9 haplotypes and anticoagulation‐related outcomes.
References
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Book
Molecular Evolution and Phylogenetics
Masatoshi Nei,Sudhir Kumar +1 more
TL;DR: This chapter discusses the molecular basis of evolution, the evolution of organisms based on the fossil record, and the implications of these events for phylogenetic inference.
Journal ArticleDOI
MEGA: Molecular Evolutionary Genetics Analysis software for microcomputers
TL;DR: In this program, various methods for estimating evolutionary distances from nucleotide and amino acid sequence data, three different methods of phylogenetic inference (UPGMA, neighbor-joining and maximum parsimony) and two statistical tests of topological differences are included.
Book
Molecular Evolution: A Phylogenetic Approach
TL;DR: The Archaeology of the Genome Trees Genes: Organization, Function and Evolution Genes in Populations Measuring Genetic Change Inferring Molecular Phylogeny Models of Molecular Evolution Applications of molecular phylogenetics as mentioned in this paper.
Journal ArticleDOI
Phylogenetic test of the molecular clock and linearized trees.
TL;DR: To estimate approximate divergence times of species or species groups with molecular data, a method of constructing a linearized tree under the assumption of a molecular clock is developed and used to analyze hominoid mitochondrial DNA and drosophilid Adh gene sequences.
Journal ArticleDOI
Molecular Evolution — A Phylogenetic Approach.
TL;DR: The authors set themselves the tasks of showing how evolutionary information is written into gene sequences and describing the methods by which such information can be recovered and succeed, providing a wealth of examples and setting many of them in a historical perspective.
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The neighbor-joining method: a new method for reconstructing phylogenetic trees.
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