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
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Journal Article
Intraspecific nucleotide sequence differences in the major noncoding region of human mitochondrial DNA.
Satoshi Horai,K Hayasaka +1 more
TL;DR: The phylogenetic analysis indicates that diversity among the negroids is much larger than that among the caucasoids or the mongoloids, and can be separated into two distinct groups in the Japanese.
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Phylogenetic analysis of spotted fever group rickettsiae by study of the outer surface protein rOmpA.
TL;DR: To estimate the evolutionary forces that have shaped the members of the spotted fever group (SFG) rickettsiae, the ompA gene, encoding an antigenic high-molecular-mass membrane protein specific for the group, was amplified and sequenced from 21 isolates and indicated that this gene is undergoing neutral evolution.
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Biodiversity of a Burkholderia cepacia population isolated from the maize rhizosphere at different plant growth stages.
F. Di Cello,Annamaria Bevivino,Luigi Chiarini,Renato Fani,Donatella Paffetti,Silvia Tabacchioni,Claudia Dalmastri +6 more
TL;DR: The genetic diversity was related to divergences among maize root samplings, with microbial genetic variability markedly higher in the first stages of plant growth; in other words, the biodiversity of this rhizosphere bacterial population decreased over time.
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Elemental Sulfur and Thiosulfate Disproportionation by Desulfocapsa sulfoexigens sp. nov., a New Anaerobic Bacterium Isolated from Marine Surface Sediment
TL;DR: Strain SB164P1 is the first bacterium described that grows chemolithoautotrophically exclusively by the disproportionation of inorganic sulfur compounds and is proposed to be designated the type strain of Desulfocapsa sulfoexigens sp.
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AtMYB12 regulates caffeoyl quinic acid and flavonol synthesis in tomato : expression in fruit results in very high levels of both types of polyphenol
Jie Luo,Eugenio Butelli,Lionel Hill,Adrian J. Parr,Ricarda Niggeweg,Paul Bailey,Bernd Weisshaar,Cathie Martin +7 more
TL;DR: The data indicate that transcription factors may have different specificities for target genes in different plants, which is of significance when designing strategies to improve metabolite accumulation and the anti-oxidant capacity of foods.
References
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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.