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Neighbor-Net: An agglomerative method for the construction of phylogenetic networks
Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, The Linnaeus Centre for Bioinformatics.
2004 (Swedish)In: Molecular Biology and Evolution, ISSN 0737-4038, Vol. 21, no 2, 255-265 p.Article in journal (Refereed) Published
Abstract [en]

We present Neighbor-Net, a distance based method for constructing phylogenetic networks that is based on the Neighbor-Joining (NJ) algorithm of Saitou and Nei. Neighbor-Net provides a snapshot of the data that can guide more detailed analysis. Unlike split decomposition, Neighbor-Net scales well and can quickly produce detailed and informative networks for several hundred taxa. We illustrate the method by reanalyzing three published data sets: a collection of 110 highly recombinant Salmonella multi-locus sequence typing sequences, the 135 "African Eve" human mitochondrial sequences published by Vigilant et al., and a collection of 12 Archeal chaperonin sequences demonstrating strong evidence for gene conversion. Neighbor-Net is available as part of the SplitsTree4 software package.

Place, publisher, year, edition, pages
2004. Vol. 21, no 2, 255-265 p.
Keyword [en]
networks; neighbor-joining; recombination; SplitsTree, gene conversion, median networks, sequence data, evolution, trees, DNA, reconstruction, chaperonins, populations, algorithm
Identifiers
URN: urn:nbn:se:uu:diva-71816OAI: oai:DiVA.org:uu-71816DiVA: diva2:99727
Available from: 2005-05-12 Created: 2005-05-12 Last updated: 2011-01-12

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