Autopolyploidy, allopolyploidy, and phylogenetic networks with horizontal arcs

DOI10.1007/S11538-023-01140-9zbMATH Open1514.92072arXiv2210.05269OpenAlexW4362657803MaRDI QIDQ6044232FDOQ6044232

Authors: Katharina T. Huber, L. J. Maher 

Publication date: 17 May 2023

Published in: Bulletin of Mathematical Biology (Search for Journal in Brave)

Abstract: Polyploidization is an evolutionary process by which a species acquires multiple copies of its complete set of chromosomes. The reticulate nature of the signal left behind by it means that phylogenetic networks offer themselves as a framework to reconstruct the evolutionary past of species affected by it. The main strategy for doing this is to first construct a so called multiple-labelled tree and to then somehow derive such a network from it. The following question therefore arises: How much can be said about that past if such a tree is not readily available? By viewing a polyploid dataset as a certain vector which we call a ploidy (level) profile we show that, among other results, there always exists a phylogenetic network in the form of a beaded phylogenetic tree with additional arcs that realizes a given ploidy profile. Intriguingly, the two end vertices of almost all of these additional arcs can be interpreted as having co-existed in time thereby adding biological realism to our network, a feature that is, in general, not enjoyed by phylogenetic networks. In addition, we show that our network may be viewed as a generator of ploidy profile space, a novel concept similar to phylogenetic tree space that we introduce to be able to compare phylogenetic networks that realize one and the same ploidy profile. We illustrate our findings in terms of a publicly available Viola dataset.

Full work available at URL: https://arxiv.org/abs/2210.05269

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zbMATH Keywords

phylogenetic networkploidy profileploidy profile spacepolyploid phylogenetics

Mathematics Subject Classification ID

Problems related to evolution (92D15)

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Cited In (2)

• Peripheral structures in unlabelled trees and the accumulation of subgenomes in the evolution of polyploids
• The hybrid number of a ploidy profile

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