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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Journal ArticleDOI
A phylogenetic and structural analysis of truncated hemoglobins.
TL;DR: It is found that trHbs are orthologous within each group and paralogous across the groups, and Group I globins form the most disparate set and separate into two divergent subgroups.
Journal ArticleDOI
Group A rotavirus in sewage samples from Barcelona and Cairo: emergence of unusual genotypes.
TL;DR: Rotavirus variability exhibited not only a geographic pattern but also a temporal pattern and two P[−]G5 strains were isolated in Barcelona, and the porcine or human origin of these strains was unclear.
Journal ArticleDOI
Evidence for recombination of mtDNA in the marine mussel Mytilus trossulus from the Baltic.
TL;DR: This study reports recombinant mtDNA molecules in a related mussel species, Mytilus trossulus, from the Baltic and speculate that acquisition of the noncoding region by the recombinant molecules has conferred a paternal role on mtDNA genomes that otherwise resemble the F genome in sequence.
Journal ArticleDOI
From Europe to Africa and vice versa: evidence for multiple intercontinental dispersal in ribbed salamanders (Genus Pleurodeles)
TL;DR: This work test for plausibility of two mutually exclusive Iberian–African vicariance hypotheses to explain the basal split within newts of the genus Pleurodeles: (1) the disconnection of the Betic arch c.
Journal ArticleDOI
Ancient DNA Analyses Reveal High Mitochondrial DNA Sequence Diversity and Parallel Morphological Evolution of Late Pleistocene Cave Bears
Michael Hofreiter,Cristian Capelli,Matthias Krings,Lisette P. Waits,Nicholas J. Conard,Susanne C. Münzel,Gernot Rabeder,Doris Nagel,Maja Paunović,Gordana Jambrešić,Sonja Meyer,Gunter Weiss,Svante Pääbo +12 more
TL;DR: In this article, the mtDNA sequences from 12 cave bears that range in age from about 26,500 to at least 49,000 years and originate from nine caves were used to investigate the genetic diversity, population history, and relationship among different cave bear populations.
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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