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
SARS — beginning to understand a new virus
Konrad Stadler,Vega Masignani,Markus Eickmann,Stephan Becker,Sergio Abrignani,Hans-Dieter Klenk,Rino Rappuoli +6 more
TL;DR: The genomics of the Sars coronavirus (SARS-CoV), its phylogeny, antigenic structure, immune response and potential therapeutic interventions should the SARS epidemic flare up again are reviewed.
Journal ArticleDOI
Compilation of small ribosomal subunit RNA structures
TL;DR: The database on small ribosomal subunit RNA structure contained 1804 nucleotide sequences on April 23, 1993, which comprises 365 eukaryotic, 65 archaeal, 1260 bacterial, 30 plastidial, and 84 mitochondrial sequences.
Journal ArticleDOI
Haplotype structure and population genetic inferences from nucleotide- sequence variation in human lipoprotein lipase
Andrew G. Clark,Kenneth M. Weiss,Deborah A. Nickerson,Scott L. Taylor,Anne V. Buchanan,Jari H. Stengård,Veikko Salomaa,Erkki Vartiainen,Markus Perola,Eric Boerwinkle,Charles F. Sing +10 more
TL;DR: The data suggest that the design and interpretation of disease-association studies may not be as straightforward as often is assumed, owing to complex historical patterns of population founding, drift, selection, and recombination.
Journal ArticleDOI
Mutation of CDH23, encoding a new member of the cadherin gene family, causes Usher syndrome type 1D
Hanno J. Bolz,von Brederlow B,Alfredo Ramirez,Elizabeth C. Bryda,Kerstin Kutsche,Hans Gerd Nothwang,Mathias W. Seeliger,del C-Salcedó Cabrera M,Vila Mc,Molina Op,Andreas Gal,Christian Kubisch +11 more
TL;DR: The data show that different mutations in CDH23 result in USH1D with a variable retinal phenotype, and it is shown that mutations in the mouse ortholog cause disorganization of inner ear stereocilia and deafness in the waltzer mouse.
Journal ArticleDOI
Using allele frequencies and geographic subdivision to reconstruct gene trees within a species: molecular variance parsimony.
Laurent Excoffier,P E Smouse +1 more
TL;DR: It is shown that equally parsimonious trees yield very different estimates of population genetic diversity and genetic structure, as shown by null distributions of the population statistics, obtained by evaluation of 10,000 random MSTs.
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.