NeighborNet: An agglomerative method for the construction of phylogenetic networks

David Bryant; Vincent Moulton

doi:10.1093/molbev/msh018

NeighborNet: An agglomerative method for the construction of phylogenetic networks

David Bryant, Vincent Moulton

Research output: Contribution to journal › Article › peer-review

1547 Citations (SciVal)

Abstract

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.

Original language	English
Pages (from-to)	255-265
Number of pages	11
Journal	Molecular Biology and Evolution
Volume	21
Issue number	2
DOIs	https://doi.org/10.1093/molbev/msh018
Publication status	Published - 2004

Access to Document

10.1093/molbev/msh018

Cite this

@article{d418bfc5567b40ec9c85803186d621f7,

title = "NeighborNet: An agglomerative method for the construction of phylogenetic networks",

abstract = "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.",

author = "David Bryant and Vincent Moulton",

year = "2004",

doi = "10.1093/molbev/msh018",

language = "English",

volume = "21",

pages = "255--265",

journal = "Molecular Biology and Evolution",

issn = "0737-4038",

publisher = "Oxford University Press",

number = "2",

}

TY - JOUR

T1 - NeighborNet: An agglomerative method for the construction of phylogenetic networks

AU - Bryant, David

AU - Moulton, Vincent

PY - 2004

Y1 - 2004

N2 - 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.

AB - 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.

U2 - 10.1093/molbev/msh018

DO - 10.1093/molbev/msh018

M3 - Article

VL - 21

SP - 255

EP - 265

JO - Molecular Biology and Evolution

JF - Molecular Biology and Evolution

SN - 0737-4038

IS - 2

ER -