TY - JOUR
T1 - Orchard Networks are Trees with Additional Horizontal Arcs
AU - van Iersel, Leo
AU - Janssen, Remie
AU - Jones, Mark
AU - Murakami, Yukihiro
PY - 2022
Y1 - 2022
N2 - 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)).
AB - 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)).
KW - Connectedness
KW - Orchard networks
KW - Phylogenetic networks
KW - Rearrangement moves
UR - http://www.scopus.com/inward/record.url?scp=85132274798&partnerID=8YFLogxK
U2 - 10.1007/s11538-022-01037-z
DO - 10.1007/s11538-022-01037-z
M3 - Article
C2 - 35727410
AN - SCOPUS:85132274798
SN - 0092-8240
VL - 84
JO - Bulletin of Mathematical Biology
JF - Bulletin of Mathematical Biology
IS - 8
M1 - 76
ER -