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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Enzootic rabies elimination from dogs and reemergence in wild terrestrial carnivores, United States.
Andres Velasco-Villa,Serena A. Reeder,Lillian A. Orciari,Pamela A. Yager,Richard Franka,Jesse D. Blanton,Letha Zuckero,Patrick R. Hunt,Ernest H. Oertli,Laura E. Robinson,Charles E. Rupprecht +10 more
TL;DR: Independent enzootic events in wild terrestrial carnivores resulted from spillover events from long-term enzootics associated with dogs.
Journal ArticleDOI
Characterization of severe acute respiratory syndrome coronavirus genomes in Taiwan: molecular epidemiology and genome evolution.
Shiou-Hwei Yeh,Hurng-Yi Wang,Ching Yi Tsai,Chuan-Liang Kao,Jyh-Yuan Yang,Hwan-Wun Liu,Ih-Jen Su,Shih-Feng Tsai,Ding-Shinn Chen,Pei-Jer Chen +9 more
TL;DR: A systematic viral lineage study by sequencing the entire viral genome from ten SARS patients showed a positive selection occurring during SARS-CoV virus evolution, and indicated that SARS viral genomes did not reach equilibrium and suggested a recent introduction of the viruses into human populations.
Journal ArticleDOI
Phylogenetic analysis of ecological and morphological diversification in Hispaniolan trunk-ground anoles (Anolis cybotes group).
Richard E. Glor,Jason J. Kolbe,Robert Powell,Allan Larson,Allan Larson,Jonathan B. Losos,Jonathan B. Losos +6 more
TL;DR: A combined phylogeographic and morphometric study of Anolis cybotes group reveals a strong association between macrohabitat type and morphology independent of phylogeny, which may be a major factor in the evolutionary diversification of Greater Antillean anoles.
Journal ArticleDOI
Microbial community analysis of mesophilic anaerobic protein degradation process using bovine serum albumin (BSA)-fed continuous cultivation
TL;DR: Two mesophilic anaerobic chemostats were supplied with synthetic wastewater containing bovine serum albumin as the sole carbon and energy source in order to study the capacity of protein degradation, microbial community structure and the effects of the addition of trace metals.
Journal ArticleDOI
A Novel Gene Family NBPF: Intricate Structure Generated by Gene Duplications During Primate Evolution
TL;DR: A novel and intricate human gene family located primarily in regions of segmental duplications on human chromosome 1 is identified, named NBPF, for neuroblastoma breakpoint family, because one of its members is disrupted by a chromosomal translocation in a Neuroblastoma patient.
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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