Inferring evolutionary history of gene clusters from phlogenetic and gene order data

Lajoie, Mathieu, Bertrand, Denis and El-Mabrouk, Nadia (2010) Inferring evolutionary history of gene clusters from phlogenetic and gene order data. Molecular Biology and Evolution, 27 4: 761-772. doi:10.1093/molbev/msp271


Author Lajoie, Mathieu
Bertrand, Denis
El-Mabrouk, Nadia
Title Inferring evolutionary history of gene clusters from phlogenetic and gene order data
Journal name Molecular Biology and Evolution   Check publisher's open access policy
ISSN 0737-4038
1537-1719
Publication date 2010-04-01
Year available 2009
Sub-type Article (original research)
DOI 10.1093/molbev/msp271
Volume 27
Issue 4
Start page 761
End page 772
Total pages 12
Place of publication Cary, NC, United States
Publisher Oxford University Press
Language eng
Abstract Gene duplication is frequent within gene clusters and plays a fundamental role in evolution by providing a source of new genetic material upon which natural selection can act. Although classical phylogenetic inference methods provide some insight into the evolutionary history of a gene cluster, they are not sufficient alone to differentiate single- from multiple gene duplication events and to answer other questions regarding the nature and size of evolutionary events. In this paper, we present an algorithm allowing to infer a set of optimal evolutionary histories for a gene cluster in a single species, according to a general cost model involving variable length duplications (in tandem or inverted), deletions, and inversions. We applied our algorithm to the human olfactory receptor and protocadherin gene clusters, showing that the duplication size distribution differs significantly between the two gene families. The algorithm is available through a web interface at http://www-lbit.iro.umontreal.ca/DILTAG/.
Keyword Tandem duplication
Inverted duplication
Gene loss
Gene tree
Q-Index Code C1
Q-Index Status Provisional Code
Institutional Status Non-UQ
Additional Notes First published online: November 10, 2009

Document type: Journal Article
Sub-type: Article (original research)
Collection: Institute for Molecular Bioscience - Publications
 
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Created: Wed, 25 Jul 2012, 21:13:26 EST by Susan Allen on behalf of Institute for Molecular Bioscience