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- Title
On Hill et al's conjecture for calculating the subtree prune and regraft distance between phylogenies.
- Authors
Linz, Simone
- Abstract
Background: Recently, Hill et al. [1] implemented a new software package-called SPRIT-which aims at calculating the minimum number of horizontal gene transfer events that is needed to simultaneously explain the evolution of two rooted binary phylogenetic trees on the same set of taxa. To this end, SPRIT computes the closely related socalled rooted subtree prune and regraft distance between two phylogenies. However, calculating this distance is an NP-hard problem and exact algorithms are often only applicable to small- or medium-sized problem instances. Trying to overcome this problem, Hill et al. propose a divide-and-conquer approach to speed up their algorithm and conjecture that this approach can be used to compute the rooted subtree prune and regraft distance exactly. Results: In this note, we present a counterexample to Hill et al's conjecture and subsequently show that a modified version of their conjecture holds. Conclusion: While Hill et al's conjecture may result in an overestimate of the rooted subtree prune and regraft distance, a slightly more restricted version of their approach gives the desired outcome and can be applied to speed up the exact calculation of this distance between two phylogenies.
- Subjects
GENETIC transformation; COMPUTER software; PHYLOGENY; GENETIC algorithms; PRUNE
- Publication
BMC Evolutionary Biology, 2010, Vol 10, p334
- ISSN
1471-2148
- Publication type
Article
- DOI
10.1186/1471-2148-10-334