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Constructing the Simplest Possible Phylogenetic Network from Triplets
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Constructing the Simplest Possible Phylogenetic Network from Triplets
Leo van Iersel4 and Steven Kelk5 
| (4) |
Department of Mathematics and Computer Science, Technische Universiteit Eindhoven, P.O. Box 513, 5600 MB Eindhoven, The Netherlands |
| (5) |
Centrum voor Wiskunde en Informatica (CWI), P.O. Box 94079, 1090 GB Amsterdam, The Netherlands |
Abstract
A phylogenetic network is a directed acyclic graph that visualises an evolutionary history containing so-called reticulations such as recombinations, hybridisations or lateral gene transfers. Here we consider the construction of a simplest possible
phylogenetic network consistent with an input set T, where T contains at least one phylogenetic tree on three leaves (a triplet) for each combination of three taxa. To quantify the complexity of a network we consider both the total number of reticulations
and the number of reticulations per biconnected component, called the level of the network. We give polynomial-time algorithms for constructing a level-1 respectively a level-2 network that contains
a minimum number of reticulations and is consistent with T (if such a network exists). In addition, we show that if T is precisely equal to the set of triplets consistent with some network, then we can construct such a network, which minimises
both the level and the total number of reticulations, in time O(|T|
k + 1), if k is a fixed upper bound on the level.
Part of this research has been funded by the Dutch BSIK/BRICKS project.
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