Not all phylogenetic networks are leaf-reconstructible
Sign Up to like & getrecommendations! Published in 2019 at "Journal of Mathematical Biology"
DOI: 10.1007/s00285-019-01405-9
Abstract: Unrooted phylogenetic networks are graphs used to represent reticulate evolutionary relationships. Accurately reconstructing such networks is of great relevance for evolutionary biology. It has recently been conjectured that all unrooted phylogenetic networks for at least… read more here.
Keywords: phylogenetic networks; biology; leaf reconstructible; networks leaf ... See more keywords
Distinguishing level-1 phylogenetic networks on the basis of data generated by Markov processes
Sign Up to like & getrecommendations! Published in 2021 at "Journal of Mathematical Biology"
DOI: 10.1007/s00285-021-01653-8
Abstract: Phylogenetic networks can represent evolutionary events that cannot be described by phylogenetic trees. These networks are able to incorporate reticulate evolutionary events such as hybridization, introgression, and lateral gene transfer. Recently, network-based Markov models of… read more here.
Keywords: network; level phylogenetic; phylogenetic networks; data generated ... See more keywords
Trinets encode orchard phylogenetic networks.
Sign Up to like & getrecommendations! Published in 2021 at "Journal of mathematical biology"
DOI: 10.1007/s00285-021-01654-7
Abstract: Rooted triples, rooted binary phylogenetic trees on three leaves, are sufficient to encode rooted binary phylogenetic trees. That is, if [Formula: see text] and [Formula: see text] are rooted binary phylogenetic X-trees that infer the… read more here.
Keywords: rooted triples; binary phylogenetic; see text; formula see ... See more keywords
Uprooted Phylogenetic Networks
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DOI: 10.1007/s11538-017-0318-x
Abstract: The need for structures capable of accommodating complex evolutionary signals such as those found in, for example, wheat has fueled research into phylogenetic networks. Such structures generalize the standard model of a phylogenetic tree by… read more here.
Keywords: network; uprooted phylogenetic; phylogenetic networks; biology ... See more keywords
Defining phylogenetic networks using ancestral profiles.
Sign Up to like & getrecommendations! Published in 2021 at "Mathematical biosciences"
DOI: 10.1016/j.mbs.2021.108537
Abstract: Rooted phylogenetic networks provide a more complete representation of the ancestral relationship between species than phylogenetic trees when reticulate evolutionary processes are at play. One way to reconstruct a phylogenetic network is to consider its… read more here.
Keywords: networks using; defining phylogenetic; network; ancestral profiles ... See more keywords
A fast and scalable method for inferring phylogenetic networks from trees by aligning lineage taxon strings.
Sign Up to like & getrecommendations! Published in 2023 at "Genome research"
DOI: 10.1101/gr.277669.123
Abstract: The reconstruction of phylogenetic networks is an important but challenging problem in phylogenetics and genome evolution, as the space of phylogenetic networks is vast and cannot be sampled well. One approach to the problem is… read more here.
Keywords: phylogenetic trees; network; aligning lineage; phylogenetic networks ... See more keywords
Planar Rooted Phylogenetic Networks
Sign Up to like & getrecommendations! Published in 2022 at "IEEE/ACM Transactions on Computational Biology and Bioinformatics"
DOI: 10.1109/tcbb.2022.3185670
Abstract: A rooted phylogenetic network is a directed acyclic graph with a single root, whose sinks correspond to a set of species. As such networks are useful for representing the evolution of species that have undergone… read more here.
Keywords: phylogenetic networks; planar rooted; rooted phylogenetic; networks planar ... See more keywords
Rearrangement moves on rooted phylogenetic networks
Sign Up to like & getrecommendations! Published in 2017 at "PLoS Computational Biology"
DOI: 10.1371/journal.pcbi.1005611
Abstract: Phylogenetic tree reconstruction is usually done by local search heuristics that explore the space of the possible tree topologies via simple rearrangements of their structure. Tree rearrangement heuristics have been used in combination with practically… read more here.
Keywords: rooted phylogenetic; network; rearrangement moves; phylogenetic networks ... See more keywords
Frin: An Efficient Method for Representing Genome Evolutionary History
Sign Up to like & getrecommendations! Published in 2019 at "Frontiers in Genetics"
DOI: 10.3389/fgene.2019.01261
Abstract: Phylogenetic analysis is important in understanding the process of biological evolution, and phylogenetic trees are used to represent the evolutionary history. Each taxon in a phylogenetic tree has not more than one parent, so phylogenetic… read more here.
Keywords: genome evolutionary; phylogenetic networks; efficient method; evolutionary history ... See more keywords