Results 241 to 250 of about 898,857 (281)

Language trees ≠ gene trees

Theory in Biosciences, 2010
Darwin saw similarities between the evolution of species and the evolution of languages, and it is now widely accepted that similarities between related languages can often be interpreted in terms of a bifurcating descent history (‘phylogenesis’). Such interpretations are supported when the distributions of shared and unshared traits (for example, in ...
James Steele, Anne Kandler
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From Gene Trees to Species Trees

SIAM Journal on Computing, 2000
Summary: This paper studies various algorithmic issues in reconstructing a species tree from gene trees under the duplication and the mutation cost model. This is a fundamental problem in computational molecular biology. Our main results are as follows.
Ma, B., Li, M., Zhang, L.
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The gene tree delusion

Molecular Phylogenetics and Evolution, 2016
Higher-level relationships among placental mammals are mostly resolved, but several polytomies remain contentious. Song et al. (2012) claimed to have resolved three of these using shortcut coalescence methods (MP-EST, STAR) and further concluded that these methods, which assume no within-locus recombination, are required to unravel deep-level ...
Mark S, Springer, John, Gatesy
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Rooting Species Trees Using Gene Tree-Species Tree Reconciliation

2022
Interpreting phylogenetic trees requires a root, which provides the direction of evolution and polarizes ancestor-descendant relationships. But inferring the root using genetic data is difficult, particularly in cases where the closest available outgroup is only distantly related, which are common for microbes.
Brogan J, Harris, Paul O, Sheridan, Adrián A, Davín, Cécile, Gubry-Rangin, Gergely J, Szöllősi, Tom A, Williams   +5 more
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From Gene to Organismal Phylogeny: Reconciled Trees and the Gene Tree/Species Tree Problem

Molecular Phylogenetics and Evolution, 1997
The processes of gene duplication, loss, and lineage sorting can result in incongruence between the phylogenies of genes and those of species. This incongruence complicates the task of inferring the latter from the former. We describe the use of reconciled trees to reconstruct the history of a gene tree with respect to a species tree.
R D, Page, M A, Charleston
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Gene Trees vs Species Trees

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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MITOCHONDRIAL-GENE TREES VERSUS NUCLEAR-GENE TREES, A REPLY TO HOELZER

Evolution, 1997
With regard to lineage sorting, I argued that the mitochondrial-haplotype (mt-haplotype) tree is more likely to be congruent with the species tree than is a nuclear-gene tree. The probability of congruence depends on the length of internodes between bifurcations or speciation events and the effective size of the ancestral populations in the internodes ...
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Synthesizing Species Trees from Unrooted Gene Trees

Proceedings of the 8th ACM International Conference on Bioinformatics, Computational Biology,and Health Informatics, 2017
Synthesizing species trees from a collection of smaller gene trees is a widely used approach for inferring credible species tree estimates. While corresponding computational problems are typically NP-hard, several of these problems have been effectively addressed by using the parameterized Strict Consensus Approach.
Jucheol Moon, Oliver Eulenstein
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