The neighbor-joining method: a new method for reconstructing phylogenetic trees.
Naruya Saitou,Masatoshi Nei +1 more
TLDR
The neighbor-joining method and Sattath and Tversky's method are shown to be generally better than the other methods for reconstructing phylogenetic trees from evolutionary distance data.Abstract:
A new method called the neighbor-joining method is proposed for reconstructing phylogenetic trees from evolutionary distance data. The principle of this method is to find pairs of operational taxonomic units (OTUs [= neighbors]) that minimize the total branch length at each stage of clustering of OTUs starting with a starlike tree. The branch lengths as well as the topology of a parsimonious tree can quickly be obtained by using this method. Using computer simulation, we studied the efficiency of this method in obtaining the correct unrooted tree in comparison with that of five other tree-making methods: the unweighted pair group method of analysis, Farris's method, Sattath and Tversky's method, Li's method, and Tateno et al.'s modified Farris method. The new, neighbor-joining method and Sattath and Tversky's method are shown to be generally better than the other methods.read more
Citations
More filters
Journal ArticleDOI
Phylogeny of the genus Flavivirus.
TL;DR: The phylogenetic study revealed for the first time that from the putative ancestor two branches, non-vector and vector-borne virus clusters, evolved and from the latter cluster emerged tick-borne and mosquito-borne viruses clusters.
Journal ArticleDOI
DNA barcoding: how it complements taxonomy, molecular phylogenetics and population genetics
TL;DR: It is suggested that DNA barcoding can complement current research in these areas by providing background information that will be helpful in the selection of taxa for further analyses and provide a unique 'horizontal' genomics perspective with broad implications.
Journal ArticleDOI
Clades of Adeno-Associated Viruses Are Widely Disseminated in Human Tissues
Guangping Gao,Luk H. Vandenberghe,Mauricio R. Alvira,You Lu,Roberto Calcedo,Xiangyang Zhou,James M. Wilson +6 more
TL;DR: The potential for using Adeno-associated virus (AAV) as a vector for human gene therapy has stimulated interest in the Dependovirus genus as mentioned in this paper, although analyses of viruses and viral sequences from clinical samples are extremely limited.
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.
Posted Content
The similarity metric
TL;DR: A new "normalized information distance" is proposed, based on the noncomputable notion of Kolmogorov complexity, and it is demonstrated that it is a metric and called the similarity metric.
References
More filters
Book
Molecular Evolutionary Genetics
TL;DR: Recent developments of statistical methods in molecular phylogenetics are reviewed and it is shown that the mathematical foundations of these methods are not well established, but computer simulations and empirical data indicate that currently used methods produce reasonably good phylogenetic trees when a sufficiently large number of nucleotides or amino acids are used.
Book
Principles of numerical taxonomy
Robert R. Sokal,P.H.A. Sneath +1 more
TL;DR: The authors continued the story of psychology with added research and enhanced content from the most dynamic areas of the field, such as cognition, gender and diversity studies, neuroscience and more, while at the same time using the most effective teaching approaches and learning tools.