A set of phylogenetic trees with overlapping leaf sets is
consistent if it can be merged without conflicts into a supertree. In this paper, we study the polynomial-time approximability of two
related optimization problems called
the maximum rooted triplets consistency problem (
MAXRTC\textsc{MaxRTC}) and
the minimum rooted triplets inconsistency problem (
MINRTI\textsc{MinRTI}) in which the input is a set
R\mathcal{R} of rooted triplets, and where the objectives are to find a largest cardinality subset of
R\mathcal{R} which is consistent and a smallest cardinality subset of
R\mathcal{R} whose removal from
R\mathcal{R} results in a consistent set, respectively. We first show that a simple modification to Wu’s
Best-Pair-Merge-First heuristic [25] results in a bottom-up-based 3-approximation for
MAXRTC\textsc{MaxRTC}. We then demonstrate how any approximation algorithm for
MINRTI\textsc{MinRTI} could be used to approximate
MAXRTC\textsc{MaxRTC}, and thus obtain the first polynomial-time approximation algorithm for
MAXRTC\textsc{MaxRTC} with approximation ratio smaller than 3. Next, we prove that for a set of rooted triplets generated under a uniform random
model, the maximum fraction of triplets which can be consistent with any tree is approximately one third, and then provide
a deterministic construction of a triplet set having a similar property which is subsequently used to prove that both
MAXRTC\textsc{MaxRTC} and
MINRTI\textsc{MinRTI} are
NP-hard even if restricted to minimally dense instances. Finally, we prove that
MINRTI\textsc{MinRTI} cannot be approximated within a ratio of
Ω(log
n) in polynomial time, unless
P =
NP.