Results 251 to 260 of about 92,975 (280)

RASP (Reconstruct Ancestral State in Phylogenies): A tool for historical biogeography

Molecular Phylogenetics and Evolution, 2015
We announce the release of Reconstruct Ancestral State in Phylogenies (RASP), a user-friendly software package for inferring historical biogeography through reconstructing ancestral geographic distributions on phylogenetic trees. RASP utilizes the widely used Statistical-Dispersal Vicariance Analysis (S-DIVA), the Dispersal-Extinction-Cladogenesis (DEC)
Yan, Yu, Alan J, Harris, Christopher, Blair, Xingjin, He   +3 more
openaire   +4 more sources

Ancestral State Reconstruction Using BayesTraits

2022
The fossil record is the best evidence of the characteristics of extinct species, but only a narrow range of traits fossilize or survive the fossilization process. Lacking fossil or other evidence about the past, ancestral states can be reconstructed. Three pieces of information are combined when reconstructing ancestral states: extant or known trait ...
Andrew, Meade, Mark, Pagel
openaire   +2 more sources

Reconstructing ancestral character states: a critical reappraisal

Trends in Ecology & Evolution, 1998
Using parsimony to reconstruct ancestral character states on a phylogenetic tree has become a popular method for testing ecological and evolutionary hypotheses. Despite its popularity, the assumptions and uncertainties of reconstructing the ancestral states of a single character have received less attention than the much less challenging endeavor of ...
C W, Cunningham, K E, Omland, T H, Oakley   +2 more
openaire   +2 more sources

Multi-task learning improves ancestral state reconstruction

Theoretical Population Biology, 2019
We consider the ancestral state reconstruction problem where we need to infer phenotypes of ancestors using observations from present-day species. For this problem, we propose a multi-task learning method that uses regularized maximum likelihood to estimate the ancestral states of various traits simultaneously.
Ho, Lam Si Tung, Dinh, Vu, Nguyen, Cuong V.   +2 more
openaire   +2 more sources

Reconstructing ancestral character states under Wagner parsimony

Mathematical Biosciences, 1987
Phylogenetic trees are used to describe (hypothetical) evolutionary relationships among taxa. Given a number of operational taxonomic units (OTUs) each of which comprises character states for several characters, the problem of assigning optimal character states to the hypothetical ancestors is examined.
Swofford, David L., Maddison, Wayne P.
openaire   +1 more source

Ancestral state reconstructions for genomes

Current Opinion in Genetics & Development, 2005
The recent expansion of phylogenetic analysis from the traditional field of molecular evolution, analyzing histories of genes, to the nascent field of "genomic evolution", analyzing histories of entire genomes, enables the construction of trees based on genome information, the quantification of the key processes that shape genome content and ...
openaire   +2 more sources

Ancestral state reconstruction analysis of hymenopteran sex determination mechanisms

Journal of Evolutionary Biology, 2009
AbstractWe provide the first phylogenetic evidence supporting complementary sex determination (CSD) as the ancestral mechanism for haplodiploidy in the Hymenoptera. It is currently not possible, however, to distinguish the evolutionary polarity of single locus (sl) CSD and multiple‐locus (ml) CSD given the available data.
Asplen, M. K., Whitfield, J. B., de Boer, J. G., Heimpel, G. E.   +3 more
openaire   +2 more sources

Reconstructing phylogenetic trees and ancestral character states

1991
Abstract We described in the previous chapter how living organisms come to contain information about their evolutionary history, and why this means that comparative analyses must utilize phylogenetic information. This chapter asks what phylogenetic information we need for comparative tests, and how we might obtain it.
Paul H Harvey, Mark D Pagel
openaire   +1 more source

Analyzing the Fitch Method for Reconstructing Ancestral States on Ultrametric Phylogenetic Trees

Bulletin of Mathematical Biology, 2010
The accuracy of the Fitch method for reconstructing ancestral states on ultrametric phylogenetic trees is studied. Two recurrence relations for computing the accuracy are given here. Using these relations, we analyze the convergence of the accuracy of the Fitch method for reconstructing the root state on a complete binary tree of 2( n ) leaves as n ...
Zhang, L., Shen, J., Yang, J., Li, G.
openaire   +3 more sources

Evolutionary properties of sequences and ancestral state reconstruction

2007
AbstractA number of authors have recently stressed the importance of understanding the evolution of protein-protein interactions as an underlying cause of covarion-like patterns of evolution in ancestral sequences. Coevolution of interacting partners is seen as important, first in directing the evolution of proteins, and second in explaining why ...
Lesley J. Collins, Peter J. Lockhart
openaire   +1 more source