Fares, Mario A. and Keane, Orla M. and Toft, Christina and Carretero-Paulet, Lorenzo and Jones, Gary W. (2013) The Roles of Whole-Genome and Small-Scale Duplications in the Functional Specialization of Saccharomyces cerevisiae Genes. PLos Genetics, 9 (1). e1003176. ISSN 1553-7390

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Abstract

Researchers have long been enthralled with the idea that gene duplication can generate novel functions, crediting this process with great evolutionary importance. Empirical data shows that whole-genome duplications (WGDs) are more likely to be retained than small-scale duplications (SSDs), though their relative contribution to the functional fate of duplicates remains unexplored. Using the map of genetic interactions and the re-sequencing of 27 Saccharomyces cerevisiae genomes evolving for 2,200 generations we show that SSD-duplicates lead to neo-functionalization while WGD-duplicates partition ancestral functions. This conclusion is supported by: (a) SSD-duplicates establish more genetic interactions than singletons and WGD-duplicates; (b) SSD-duplicates copies share more interaction-partners than WGD-duplicates copies; (c) WGDduplicates interaction partners are more functionally related than SSD-duplicates partners; (d) SSD-duplicates gene copies are more functionally divergent from one another, while keeping more overlapping functions, and diverge in their subcellular locations more than WGD-duplicates copies; and (e) SSD-duplicates complement their functions to a greater extent than WGD–duplicates. We propose a novel model that uncovers the complexity of evolution after gene duplication.

Item Type:	Article
Additional Information:	© 2013 Fares et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. The original article is available at doi:10.1371/journal.pgen.1003176 .
Keywords:	Whole-Genome; Small-Scale Duplications; Functional Specialization; Saccharomyces cerevisiae Genes;
Academic Unit:	Faculty of Science and Engineering > Biology
Item ID:	4088
Depositing User:	Dr. Gary Jones
Date Deposited:	22 Jan 2013 15:52
Journal or Publication Title:	PLos Genetics
Publisher:	Public Library of Science
Refereed:	Yes
URI:	http://www.plosgenetics.org/ http://www.plos.org/
Use Licence:	This item is available under a Creative Commons Attribution Non Commercial Share Alike Licence (CC BY-NC-SA). Details of this licence are available here

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