The Inference of Gene Trees with Species Trees
نویسندگان
چکیده
منابع مشابه
The Inference of Gene Trees with Species Trees
This article reviews the various models that have been used to describe the relationships between gene trees and species trees. Molecular phylogeny has focused mainly on improving models for the reconstruction of gene trees based on sequence alignments. Yet, most phylogeneticists seek to reveal the history of species. Although the histories of genes and species are tightly linked, they are seld...
متن کاملFrom gene trees to species trees II: Species tree inference in the deep coalescence model
When 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 lineage sorting, horizontal gene transfer, and gene duplication and loss. Each of these events yields a different parsimony criterion for inferring the (containing) species tree from gene trees. With lineage ...
متن کاملGene Trees in Species Trees
—Exploration of the relationship between gene trees and their containing species trees leads to consideration of how to reconstruct species trees from gene trees and of the concept of phylogeny as a cloud of gene histories. When gene copies are sampled from various species, the gene tree relating these copies might disagree with the species phylogeny. This discord can arise from horizontal tran...
متن کاملGene Trees, Species Trees, and Species Networks
The availability of whole-genome sequence data has provided a rich resource of deep insights into many biological, medical and pharmaceutical problems and applications, and is promising even more. Yet, along with these insights and promises, genomic data have given rise to many challenging problems, mainly due to the quantity and heterogeneity of such data. One of these major challenges is the ...
متن کاملDiscordance of Species Trees with Their Most Likely Gene Trees
Because of the stochastic way in which lineages sort during speciation, gene trees may differ in topology from each other and from species trees. Surprisingly, assuming that genetic lineages follow a coalescent model of within-species evolution, we find that for any species tree topology with five or more species, there exist branch lengths for which gene tree discordance is so common that the ...
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ژورنال
عنوان ژورنال: Systematic Biology
سال: 2014
ISSN: 1076-836X,1063-5157
DOI: 10.1093/sysbio/syu048