Improved Approximation Algorithm for Maximum Agreement Forest of Two Trees

Given two rooted binary phylogenetic trees with identical leaf label-set, the Maximum Agreement Forest (Maf) problem asks for a largest common subforest of these two trees. This problem is known to be NP-complete and MAX SNP-hard, and the previously best approximation algorithm for this problem has a ratio 3. In this paper, we present an improved 2.5-approximation algorithm for the Maf problem on two rooted binary phylogenetic trees.

[1]  P. Buneman The Recovery of Trees from Measures of Dissimilarity , 1971 .

[2]  Charles Semple,et al.  On the Computational Complexity of the Rooted Subtree Prune and Regraft Distance , 2005 .

[3]  Rita Casadio,et al.  Algorithms in Bioinformatics, 5th International Workshop, WABI 2005, Mallorca, Spain, October 3-6, 2005, Proceedings , 2005, WABI.

[4]  Tao Jiang,et al.  On the Complexity of Comparing Evolutionary Trees , 1996, Discret. Appl. Math..

[5]  Yoshiko Wakabayashi,et al.  The maximum agreement forest problem: Approximation algorithms and computational experiments , 2007, Theor. Comput. Sci..

[6]  Norbert Zeh,et al.  Fixed-Parameter and Approximation Algorithms for Maximum Agreement Forests of Multifurcating Trees , 2013, Algorithmica.

[7]  F. Sperling Molecular Systematics, 2nd ed. , 1997 .

[8]  Maria Luisa Bonet,et al.  Approximating Subtree Distances Between Phylogenies , 2006, J. Comput. Biol..

[9]  Yoshiko Wakabayashi,et al.  Some Approximation Results for the Maximum Agreement Forest Problem , 2001, RANDOM-APPROX.

[10]  Charles Semple,et al.  A 3-approximation algorithm for the subtree distance between phylogenies , 2008, J. Discrete Algorithms.

[11]  J. Tromp,et al.  On the nearest neighbour interchange distance between evolutionary trees. , 1996, Journal of theoretical biology.

[12]  Mihalis Yannakakis,et al.  Small Approximate Pareto Sets for Bi-objective Shortest Paths and Other Problems , 2007, APPROX-RANDOM.

[13]  D. Robinson,et al.  Comparison of phylogenetic trees , 1981 .

[14]  Norbert Zeh,et al.  A Unifying View on Approximation and FPT of Agreement Forests , 2009, WABI.