Skip Navigation


MBE Advance Access originally published online on September 8, 2004
Molecular Biology and Evolution 2005 22(1):40-50; doi:10.1093/molbev/msh257
This Article
Right arrow Full Text Freely available
Right arrow FREE Full Text (PDF) Freely available
Right arrow Supplementary Material
Right arrow All Versions of this Article:
22/1/40    most recent
msh257v1
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Similar articles in ISI Web of Science
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Add to My Personal Archive
Right arrow Download to citation manager
Right arrow Search for citing articles in:
ISI Web of Science (10)
Right arrowRequest Permissions
Google Scholar
Right arrow Articles by Oakley, T. H.
Right arrow Articles by Li, W.-H.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Oakley, T. H.
Right arrow Articles by Li, W.-H.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

Molecular Biology and Evolution vol. 22 no. 1 © Society for Molecular Biology and Evolution 2005; all rights reserved.

Research Article

Comparative Methods for the Analysis of Gene-Expression Evolution: An Example Using Yeast Functional Genomic Data

Todd H. Oakley*,{dagger},1, Zhenglong Gu*, Ehab Abouheif{dagger},3, Nipam H. Patel{dagger},2 and Wen-Hsiung Li*

* Ecology and Evolution, and {dagger} Howard Hughes Medical Institute, University of Chicago

E-mail: oakley{at}lifesci.ucsb.edu.

Understanding the evolution of gene function is a primary challenge of modern evolutionary biology. Despite an expanding database from genomic and developmental studies, we are lacking quantitative methods for analyzing the evolution of some important measures of gene function, such as gene-expression patterns. Here, we introduce phylogenetic comparative methods to compare different models of gene-expression evolution in a maximum-likelihood framework. We find that expression of duplicated genes has evolved according to a nonphylogenetic model, where closely related genes are no more likely than more distantly related genes to share common expression patterns. These results are consistent with previous studies that found rapid evolution of gene expression during the history of yeast. The comparative methods presented here are general enough to test a wide range of evolutionary hypotheses using genomic-scale data from any organism.

Key Words: evolutionary biology • gene expression • nonphylogenetic • maximum likelihood • microarray • gene duplication


Add to CiteULike CiteULike   Add to Connotea Connotea   Add to Del.icio.us Del.icio.us    What's this?


This article has been cited by other articles:


Home page
 GeneticsHome page
H. M. Kang, N. A. Zaitlen, C. M. Wade, A. Kirby, D. Heckerman, M. J. Daly, and E. Eskin
Efficient Control of Population Structure in Model Organism Association Mapping
Genetics, March 1, 2008; 178(3): 1709 - 1723.
[Abstract] [Full Text] [PDF]

Home page
 Mol Biol EvolHome page
H. Guo, R. E. Weiss, X. Gu, and M. A. Suchard
Time Squared: Repeated Measures on Phylogenies
Mol. Biol. Evol., February 1, 2007; 24(2): 352 - 362.
[Abstract] [Full Text] [PDF]

Home page
 Proc. Natl. Acad. Sci. USAHome page
T. H. Oakley, B. Ostman, and A. C. V. Wilson
Repression and loss of gene expression outpaces activation and gain in recently duplicated fly genes
PNAS, August 1, 2006; 103(31): 11637 - 11641.
[Abstract] [Full Text] [PDF]


Disclaimer:
Please note that abstracts for content published before 1996 were created through digital scanning and may therefore not exactly replicate the text of the original print issues. All efforts have been made to ensure accuracy, but the Publisher will not be held responsible for any remaining inaccuracies. If you require any further clarification, please contact our Customer Services Department.