Results 251 to 260 of about 5,410,103 (288)
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Maximum tree: a consistent estimator of the species tree
Journal of Mathematical Biology, 2009We propose a model based approach to use multiple gene trees to estimate the species tree. The coalescent process requires that gene divergences occur earlier than species divergences when there is any polymorphism in the ancestral species. Under this scenario, speciation times are restricted to be smaller than the corresponding gene split times.
Lili Yu, Liang Liu, Dennis Pearl
exaly +5 more sources
Gene trees, species and species trees in the Ctenosaura palearis clade
Conservation Genetics, 2010The growing use of molecular systematics in conservation has increased the importance of accurate resolution of taxonomic units and relationships. DNA data relate most directly to genealogies, which need not have perfect relationships with species limits and phylogenies.
Stesha A. Pasachnik +2 more
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Reconciling Gene Trees to a Species Tree
2003In this paper we deal with the general problem of recombining the information from evolutionary trees representing the relationships between distinct gene families. First we solve a problem from [8] regarding the construction of a minimum reconciled tree by giving an efficient algorithm. Then we show that the exemplar problem, arising from the exemplar
BONIZZONI, PAOLA +2 more
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Gene trees and species trees are not the same
Trends in Ecology & Evolution, 2001The relationship between species is usually represented as a bifurcating tree with the branching points representing speciation events. The ancestry of genes taken from these species can also be represented as a tree, with the branching points representing ancestral genes.
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The probability distribution of ranked gene trees on a species tree
Mathematical Biosciences, 2012The properties of random gene tree topologies have recently been studied under a coalescent model that treats a species tree as a fixed parameter. Here we develop the analogous theory for random ranked gene tree topologies, in which both the topology and the sequence of coalescences for a random gene tree are considered.
Degnan, James H. +2 more
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1998
A phylogenetic hypothesis constructed from data derived from a single gene has been called a gene tree (1), but the concept has often been used more broadly to include trees constructed from molecular data not derived from a single gene, such as chloroplast restriction site data (2). This much broader definition may be unfortunate as different problems
Petersen, Gitte, Seberg, Ole
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A phylogenetic hypothesis constructed from data derived from a single gene has been called a gene tree (1), but the concept has often been used more broadly to include trees constructed from molecular data not derived from a single gene, such as chloroplast restriction site data (2). This much broader definition may be unfortunate as different problems
Petersen, Gitte, Seberg, Ole
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Coalescent histories for discordant gene trees and species trees
Theoretical Population Biology, 2010Given a gene tree and a species tree, a coalescent history is a list of the branches of the species tree on which coalescences in the gene tree take place. Each pair consisting of a gene tree topology and a species tree topology has some number of possible coalescent histories.
Noah A, Rosenberg, James H, Degnan
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From Gene Trees to Species Trees II: Species Tree Inference by Minimizing Deep Coalescence Events
IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2011When gene copies are sampled from various species, the resulting gene tree might disagree with the containing species tree. The primary causes of gene tree and species tree discord include incomplete lineage sorting, horizontal gene transfer, and gene duplication and loss.
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The Probability of Topological Concordance of Gene Trees and Species Trees
Theoretical Population Biology, 2002The concordance of gene trees and species trees is reconsidered in detail, allowing for samples of arbitrary size to be taken from the species. A sense of concordance for gene tree and species tree topologies is clarified, such that if the "collapsed gene tree" produced by a gene tree has the same topology as the species tree, the gene tree is said to ...
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Gene trees, species trees, and species networks
2009Luay Nakhleh, Derek Ruths, Hideki Innan
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