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The complexity of inferring a minimally resolved phylogenetic supertree. (English)
Moulton, Vincent (ed.) et al., Algorithms in bioinformatics. 10th international workshop, WABI 2010, Liverpool, UK, September 6‒8, 2010. Proceedings. Berlin: Springer (ISBN 978-3-642-15293-1/pbk). Lecture Notes in Computer Science 6293. Lecture Notes in Bioinformatics, 262-273 (2010).
Summary: A recursive algorithm by Aho, Sagiv, Szymanski, and Ullman [1] forms the basis for many modern rooted supertree methods employed in Phylogenetics. However, as observed by Bryant [4], the tree output by the algorithm of Aho et al. is not always minimal; there may exist other trees which contain fewer nodes yet are still consistent with the input. In this paper, we prove strong polynomial-time inapproximability results for the problem of inferring a minimally resolved supertree from a given consistent set of rooted triplets (MinRS). We also present an exponential-time algorithm for solving MinRS exactly which is based on tree separators. It runs in $2^{O(n \log k)}$ time when every node is required to have at most $k$ children which are internal nodes and where $n$ is the cardinality of the leaf label set of the input trees.
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