Orchard Networks are Trees with Additional Horizontal Arcs

van Iersel, L.J.J.; Janssen, R.; Jones, M.E.L.; Murakami, Yukihiro

doi:10.1007/s11538-022-01037-z

Orchard Networks are Trees with Additional Horizontal Arcs

Title

Orchard Networks are Trees with Additional Horizontal Arcs

Author

van Iersel, L.J.J. (TU Delft Discrete Mathematics and Optimization)
Janssen, R. (TU Delft Discrete Mathematics and Optimization)
Jones, M.E.L. (TU Delft Discrete Mathematics and Optimization)
Murakami, Yukihiro (TU Delft Discrete Mathematics and Optimization)

Date

2022

Abstract

Phylogenetic networks are used in biology to represent evolutionary histories. The class of orchard phylogenetic networks was recently introduced for their computational benefits, without any biological justification. Here, we show that orchard networks can be interpreted as trees with additional horizontal arcs. Therefore, they are closely related to tree-based networks, where the difference is that in tree-based networks the additional arcs do not need to be horizontal. Then, we use this new characterization to show that the space of orchard networks on n leaves with k reticulations is connected under the rNNI rearrangement move with diameter O(kn+ nlog (n)).

Subject

Connectedness
Orchard networks
Phylogenetic networks
Rearrangement moves

To reference this document use:

http://resolver.tudelft.nl/uuid:8d64371d-431d-431a-a64d-a404b84ddcc7

DOI

https://doi.org/10.1007/s11538-022-01037-z

ISSN

0092-8240

Source

Bulletin of Mathematical Biology, 84 (8)

Part of collection

Institutional Repository