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. 2012 Dec;22(12):2427–2435. doi: 10.1101/gr.131953.111

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© 2012, Published by Cold Spring Harbor Laboratory Press

This article is distributed exclusively by Cold Spring Harbor Laboratory Press for the first six months after the full-issue publication date (see http://genome.cshlp.org/site/misc/terms.xhtml). After six months, it is available under a Creative Commons License (Attribution-NonCommercial 3.0 Unported License), as described at http://creativecommons.org/licenses/by-nc/3.0/.

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Figure 1. — Gene losses after whole genome duplication (WGD). Rectangles and horizontal lines represent genes and chromosomes, respectively. Red and green lines indicate cis- and trans-protein-protein interactions (PPIs) between proteins encoded by singletons or extant-paired ohnologs, respectively. (White rectangles) Genes prior to WGD. Blue and black rectangles show extant-paired ohnologs and singletons, respectively. Following WGD, all interacting gene clusters will be perfectly duplicated, resulting in exactly equal numbers of cis- and trans-PPIs. The first gene loss can occur at any locus. Gene loss that reverts the second gene to single copy will result in either retention of a cis- or a trans-PPI. If gene loss is neutral, then both scenarios should occur with equal frequency.