Inferring Phylogeny Despite Incomplete Lineage Sorting
نویسندگان
چکیده
منابع مشابه
Inferring phylogeny despite incomplete lineage sorting.
It is now well known that incomplete lineage sorting can cause serious difficulties for phylogenetic inference, but little attention has been paid to methods that attempt to overcome these difficulties by explicitly considering the processes that produce them. Here we explore approaches to phylogenetic inference designed to consider retention and sorting of ancestral polymorphism. We examine ho...
متن کاملEstimating species phylogeny from gene-tree probabilities despite incomplete lineage sorting: an example from Melanoplus grasshoppers.
Estimating phylogenetic relationships among closely related species can be extremely difficult when there is incongruence among gene trees and between the gene trees and the species tree. Here we show that incorporating a model of the stochastic loss of gene lineages by genetic drift into the phylogenetic estimation procedure can provide a robust estimate of species relationships, despite wides...
متن کاملInferring Phylogenetic Networks with Maximum Pseudolikelihood under Incomplete Lineage Sorting.
Phylogenetic networks are necessary to represent the tree of life expanded by edges to represent events such as horizontal gene transfers, hybridizations or gene flow. Not all species follow the paradigm of vertical inheritance of their genetic material. While a great deal of research has flourished into the inference of phylogenetic trees, statistical methods to infer phylogenetic networks are...
متن کاملCoalescent histories on phylogenetic networks and detection of hybridization despite incomplete lineage sorting.
Analyses of the increasingly available genomic data continue to reveal the extent of hybridization and its role in the evolutionary diversification of various groups of species. We show, through extensive coalescent-based simulations of multilocus data sets on phylogenetic networks, how divergence times before and after hybridization events can result in incomplete lineage sorting with gene tre...
متن کاملInferring duplications, losses, transfers and incomplete lineage sorting with nonbinary species trees
MOTIVATION Gene duplication (D), transfer (T), loss (L) and incomplete lineage sorting (I) are crucial to the evolution of gene families and the emergence of novel functions. The history of these events can be inferred via comparison of gene and species trees, a process called reconciliation, yet current reconciliation algorithms model only a subset of these evolutionary processes. RESULTS We...
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ژورنال
عنوان ژورنال: Systematic Biology
سال: 2006
ISSN: 1076-836X,1063-5157
DOI: 10.1080/10635150500354928