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Minimal Phylogenetic Supertrees and Local Consensus Trees

Authors Jesper Jansson, Wing-Kin Sung

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Jesper Jansson
Wing-Kin Sung

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Jesper Jansson and Wing-Kin Sung. Minimal Phylogenetic Supertrees and Local Consensus Trees. In 41st International Symposium on Mathematical Foundations of Computer Science (MFCS 2016). Leibniz International Proceedings in Informatics (LIPIcs), Volume 58, pp. 53:1-53:14, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2016) https://doi.org/10.4230/LIPIcs.MFCS.2016.53

Abstract

The problem of constructing a minimally resolved phylogenetic supertree (i.e., having the smallest possible number of internal nodes) that contains all of the rooted triplets from a consistent set R is known to be NP-hard. In this paper, we prove that constructing a phylogenetic tree consistent with R that contains the minimum number of additional rooted triplets is also NP-hard, and develop exact, exponential-time algorithms for both problems. The new algorithms are applied to construct two variants of the local consensus tree;
for any set S of phylogenetic trees over some leaf label set L,
this gives a minimal phylogenetic tree over L that contains every
rooted triplet present in all trees in S, where ``minimal'' means either having the smallest possible number of internal nodes or
the smallest possible number of rooted triplets. The second variant generalizes the RV-II tree, introduced by Kannan, Warnow, and Yooseph in 1998.

Subject Classification

Keywords
  • phylogenetic tree
  • rooted triplet
  • local consensus
  • minimal supertree
  • computational complexity
  • bioinformatics

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