Name
Abstract | ||
|---|---|---|
In a horizontal gene transfer (HGT) event a gene is transferred between two species that do not share an ancestor-descendant
relationship. Typically, no more than a few genes are horizontally transferred between any two species. However, several studies
identified pairs of species between which many different genes were horizontally transferred. Such a pair is said to be linked
by a highway of gene sharing. We present a method for inferring such highways. Our method is based on the fact that the evolutionary histories of horizontally
transferred genes disagree with the corresponding species phylogeny. Specifically, given a set of gene trees and a trusted
rooted species tree, each gene tree is first decomposed into its constituent quartet trees and the quartets that are inconsistent
with the species tree are identified. Our method finds a pair of species such that a highway between them explains the largest
(normalized) fraction of inconsistent quartets. For a problem on n species, our method requires O(n
4) time, which is optimal with respect to the quartets input size. An application of our method to a dataset of 1128 genes
from 11 cyanobacterial species, as well as to simulated datasets, illustrates the efficacy of our method.
|
Year | DOI | Venue |
|---|---|---|
2011 | 10.1007/978-3-642-16181-0_10 | Journal of Computational Biology |
Keywords | Field | DocType |
cyanobacterial species,corresponding species phylogeny,different gene,species tree,n species,horizontal gene transfer,gene tree,quartets input size,gene sharing,constituent quartet tree,detecting highway,horizontal transfer | Gene,Biology,Horizontal gene transfer,Bioinformatics,Phylogenetics,Genetics | Journal |
Volume | Issue | ISSN |
18 | 9 | 0302-9743 |
ISBN | Citations | PageRank |
3-642-16180-4 | 1 | 0.35 |
References | Authors | |
7 | 3 | |
Name | Order | Citations | PageRank |
|---|---|---|---|
| Mukul S. Bansal | 1 | 294 | 23.97 |
| J. Peter Gogarten | 2 | 74 | 5.47 |
| Ron Shamir | 3 | 3678 | 418.00 |