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Genome Biology and Evolution Advance Access published online on May 27, 2009
Genome Biology and Evolution, doi:10.1093/gbe/evp013
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© 2009 The Authors
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

Similarly strong purifying selection acts on human disease genes of all evolutionary ages

James J. Cai1, Elhanan Borenstein1,3, Rong Chen2 and Dmitri A. Petrov1,*

1 Department of Biology, Stanford University, 371 Serra Mall, Stanford, CA 94305 USA
2 Stanford Center for Biomedical Informatics Research, Department of Medicine, Stanford University School of Medicine, 251 Campus Drive, Stanford, CA 94305 USA
3 Santa Fe Institute, 1399 Hyde Park Road, Santa Fe, NM 87501 USA

* Corresponding author: Petrov DA (dpetrov{at}stanford.edu)


  Abstract

A number of studies have showed that recently created genes differ from the genes created in deep evolutionary past in many aspects. Here, we determined the age of emergence and propensity for gene loss (PGL) of all human protein-coding genes and compared disease genes with non-disease genes in terms of the evolutionary rate, strength of purifying selection, mRNA expression, and genetic redundancy. The older and the less prone to loss non-disease genes have been evolving 1.5 to 3 fold slower between humans and chimps than young non-disease genes, whereas Mendelian-disease genes have been evolving very slowly regardless of their ages and PGL. Complex disease genes showed an intermediate pattern. Disease genes also have higher mRNA expression heterogeneity across multiple tissues than non-disease genes regardless of age and PGL. Young and middle-aged disease genes have fewer similar paralogs as non-disease genes of the same age. We reasoned that genes were more likely to be involved in human disease if they were under a strong functional constraint, expressed heterogeneously across tissues, and lacked genetic redundancy. Young human genes that have been evolving under strong constraint between humans and chimps might also be enriched for genes that encode important primate or even human-specific functions.

Received January 21, 2009; Revised May 15, 2009; Accepted May 22, 2009


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