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
More filters
Journal ArticleDOI
Phylogenetic Analysis of Spotted Fever Group Rickettsiae Based on gltA, 17‐kDa, and rOmpA Genes Amplified by Nested PCR from Ticks in Japan
Mitsuhiro Ishikura,Shuji Ando,Yasuhiro Shinagawa,Kumiko Matsuura,Sumiyo Hasegawa,Takashi Nakayama,Hiromi Fujita,Mamoru Watanabe +7 more
TL;DR: The gltA genes amplified from the ticks were classified into 9 genotypes (I to IX) by the difference in nucleotide sequences, and genotypes I, III, and IV (detected from H. formosensis, H. hystricia, and I. ovatus) are genetically close with each other, but rickettsiae of the same property still have not been isolated from ticks anywhere in the world.
Journal ArticleDOI
Mitochondrial phylogeography of the moor frog, Rana arvalis.
Wiesław Babik,Wojciech Branicki,M. Sandera,Spartak N. Litvinchuk,Leo J. Borkin,J. T. Irwin,Jan Rafiński +6 more
TL;DR: The moor frog Rana arvalis is a lowland species with a broad Eurasiatic distribution, from arctic tundra through forest to the steppe zone.
Journal ArticleDOI
Molecular evolution of CXC chemokines: extant CXC chemokines originate from the CNS
Mark O. Huising,Mark O. Huising,René J. M. Stet,Corine P. Kruiswijk,Huub F. J. Savelkoul,B.M. Lidy Verburg-van Kemenade +5 more
TL;DR: Comparison of the phylogenies of vertebrate CXC chemokines revealed that fish and mammals have found different solutions to similar problems, grafted on the same basic structural motif.
Journal ArticleDOI
Single haplotype analysis demonstrates rapid evolution of the killer immunoglobulin-like receptor (KIR) loci in primates
Jennifer G. Sambrook,Arman Bashirova,Sophie Palmer,Sarah Sims,John Trowsdale,Laurent Abi-Rached,Peter Parham,Mary Carrington,Stephan Beck +8 more
TL;DR: Comparison of the two human and the two non-human primate haplotypes demonstrates rapid diversification of the KIR gene family members, many of which have diverged in a species-specific manner.
Journal ArticleDOI
G8 Rotavirus Strains Isolated in the Democratic Republic of Congo Belong to the DS-1-Like Genogroup
Jelle Matthijnssens,Mustafizur Rahman,Mustafizur Rahman,Xuelei Yang,Thomas Delbeke,Ingrid Arijs,Jean-Pierre Kabue,Jean-Jacques Tamfum Muyembe,Marc Van Ranst +8 more
TL;DR: Genomic comparison of these two African G8 strains revealed that 10 out of their 11 gene segments, except for VP4, were nearly identical, suggesting that this rare G8P[8] rotavirus strain originated recently from a reassortment between a common G8p[6] strain and a strain with a P[8) specificity.
References
More filters
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.
Related Papers (5)
The neighbor-joining method: a new method for reconstructing phylogenetic trees.
Naruya Saitou,Masatoshi Nei +1 more