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Constructing level-2 phylogenetic networks from triplets

Iersel van, L. and Keijsper, J. and Kelk, S. and Stougie, L. and Hagen, F. and Boekhout, T. (2009) Constructing level-2 phylogenetic networks from triplets. IEEE/ACM Transactions on Computational Biology and Bioinformatics, 6, 667-681. ISSN 1557-9964.

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Jansson and Sung showed that, given a dense set of input triplets T (representing hypotheses about the local evolutionary relationships of triplets of taxa), it is possible to determine in polynomial time whether there exists a level-1 network consistent with T, and if so, to construct such a network [24]. Here, we extend this work by showing that this problem is even polynomial time solvable for the construction of level-2 networks. This shows that, assuming density, it is tractable to construct plausible evolutionary histories from input triplets even when such histories are heavily nontree-like. This further strengthens the case for the use of triplet-based methods in the construction of phylogenetic networks. We also implemented the algorithm and applied it to yeast data.

Item Type:Article
Institutes:Centraalbureau voor Schimmelcultures (CBS)
ID Code:6912
Deposited On:27 Jan 2010 01:00
Last Modified:03 Aug 2010 15:25

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