Invariants for level-1 phylogenetic networks under the Cavendar-Farris-Neyman model

DOI10.1016/J.AAM.2023.102633MaRDI QIDQ6184907zbMATH OpenOpenAlexFDO

Authors Joseph Cummings, Benjamin Hollering, Christopher Manon

Publication date 29 January 2024

Published in Advances in Applied Mathematics (Search for Journal in Brave)

Full work available at URL https://arxiv.org/abs/2102.03431

zbMATH Keywords

algebraic varietygroup-based modelMarkov modelphylogenetic invariantphylogenetic networktorus action

Mathematics Subject Classification ID

Problems related to evolution (92D15)

Abstract: Phylogenetic networks can model more complicated evolutionary phenomena that trees fail to capture such as horizontal gene transfer and hybridization. The same Markov models that are used to model evolution on trees can also be extended to networks and similar questions, such as the identifiability of the network parameter or the invariants of the model, can be asked. In this paper we focus on finding the invariants of the Cavendar-Farris-Neyman (CFN) model on level-1 phylogenetic networks. We do this by reducing the problem to finding invariants of sunlet networks, which are level-1 networks consisting of a single cycle with leaves at each vertex. We then determine all quadratic invariants in the sunlet network ideal which we conjecture generate the full ideal.

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Cited in

(6)

• Dimensions of level-1 group-based phylogenetic networks
• Toric ideals of characteristic imsets via quasi-independence gluing
• Rank conditions on phylogenetic networks
• The Pfaffian structure of CFN phylogenetic networks
• When are quarnets sufficient to reconstruct semi-directed phylogenetic networks?
• Group-based phylogenetic models on 3-sunlet networks

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