Detecting Highways of Horizontal Gene Transfer

  • Mukul S. Bansal
  • J. Peter Gogarten
  • Ron Shamir
Part of the Lecture Notes in Computer Science book series (LNCS, volume 6398)


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.


Species Tree Gene Tree Horizontal Gene Transfer Gene Sharing Horizontal Edge 
These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.


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© Springer-Verlag Berlin Heidelberg 2010

Authors and Affiliations

  • Mukul S. Bansal
    • 1
  • J. Peter Gogarten
    • 2
  • Ron Shamir
    • 1
  1. 1.The Blavatnik School of Computer ScienceTel-Aviv UniversityIsrael
  2. 2.Department of Molecular and Cell BiologyUniversity of ConnecticutStorrsUSA

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