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Journal of Mathematical Biology
Article . 2021 . Peer-reviewed
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https://dx.doi.org/10.48550/ar...
Article . 2020
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Trinets encode orchard phylogenetic networks

Authors: Charles Semple; Gerry Toft;

Trinets encode orchard phylogenetic networks

Abstract

Rooted triples, rooted binary phylogenetic trees on three leaves, are sufficient to encode rooted binary phylogenetic trees. That is, if $\mathcal T$ and $\mathcal T'$ are rooted binary phylogenetic $X$-trees that infers the same set of rooted triples, then $\mathcal T$ and $\mathcal T'$ are isomorphic. However, in general, this sufficiency does not extend to rooted binary phylogenetic networks. In this paper, we show that trinets, phylogenetic network analogues of rooted triples, are sufficient to encode rooted binary orchard networks. Rooted binary orchard networks naturally generalise rooted binary tree-child networks. Moreover, we present a polynomial-time algorithm for building a rooted binary orchard network from its set of trinets. As a consequence, this algorithm affirmatively answers a previously-posed question of whether there is a polynomial-time algorithm for building a rooted binary tree-child network from the set of trinets it infers.

23 pages, 4 figures

Related Organizations
Keywords

tree-child networks, Models, Genetic, 05C85, 68R10, Systems biology, networks, Applications of graph theory, trinets, Plant Leaves, Problems related to evolution, FOS: Mathematics, Mathematics - Combinatorics, Humans, Family, level-\(k\) networks, Combinatorics (math.CO), Orchard networks, Algorithms, Phylogeny

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selected citations
These citations are derived from selected sources.
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
12
Top 10%
Average
Top 10%
Green
bronze