Reconciliation-based detection of co-evolving gene families

Chan, Yao-ban, Ranwez, Vincent and Scornavacca, Celine (2013) Reconciliation-based detection of co-evolving gene families. BMC Bioinformatics, 14 332.1-332.9. doi:10.1186/1471-2105-14-332


Author Chan, Yao-ban
Ranwez, Vincent
Scornavacca, Celine
Title Reconciliation-based detection of co-evolving gene families
Journal name BMC Bioinformatics   Check publisher's open access policy
ISSN 1471-2105
Publication date 2013-01-01
Year available 2013
Sub-type Article (original research)
DOI 10.1186/1471-2105-14-332
Open Access Status DOI
Volume 14
Start page 332.1
End page 332.9
Total pages 9
Place of publication London, United Kingdom
Publisher BioMed Central
Collection year 2014
Language eng
Formatted abstract
Background: Genes located in the same chromosome region share common evolutionary events more often than
other genes (e.g. a segmental duplication of this region). Their evolution may also be related if they are involved in the
same protein complex or biological process. Identifying co-evolving genes can thus shed light on ancestral genome
structures and functional gene interactions.
Results: We devise a simple, fast and accurate probability method based on species tree-gene tree reconciliations to
detect when two gene families have co-evolved. Our method observes the number and location of predicted
macro-evolutionary events, and estimates the probability of having the observed number of common events by
chance.
Conclusions: Simulation studies confirm that our method effectively identifies co-evolving families. This opens
numerous perspectives on genome-scale analysis where this method could be used to pinpoint co-evolving gene
families and thus help to unravel ancestral genome arrangements or undocumented gene interactions.
Q-Index Code C1
Q-Index Status Provisional Code
Institutional Status Non-UQ

Document type: Journal Article
Sub-type: Article (original research)
Collections: School of Mathematics and Physics
Non HERDC
 
Versions
Version Filter Type
Citation counts: TR Web of Science Citation Count  Cited 1 times in Thomson Reuters Web of Science Article | Citations
Scopus Citation Count Cited 1 times in Scopus Article | Citations
Google Scholar Search Google Scholar
Created: Fri, 13 Sep 2013, 02:41:31 EST by Kay Mackie on behalf of School of Mathematics & Physics