Protein under-wrapping causes dosage sensitivity and decreases gene duplicability.

PLoS Genetics
Han LiangAriel Fernández

Abstract

A fundamental issue in molecular evolution is how to identify the evolutionary forces that determine the fate of duplicated genes. The dosage balance hypothesis has been invoked to explain gene duplication patterns at the genomic level under the premise that a dosage imbalance among protein-complex subunits or interacting partners is often deleterious. Here we examine this hypothesis by investigating the molecular basis of dosage sensitivity. We focus on the extent of protein wrapping, which indicates how strongly the structural integrity of a protein relies on its interactive context. From this perspective, we predict that the duplicates of a highly under-wrapped protein or protein subunit should (1) be more sensitive to dosage imbalance and be less likely to be retained and (2) be more likely to survive from a whole-genome duplication (WGD) than from a non-WGD because a WGD causes little or no dosage imbalance. Our under-wrapping analysis of more than 12,000 protein structures strongly supports these predictions and further reveals that the effect of dosage sensitivity on gene duplicability decreases with increasing organismal complexity.

References

Jul 22, 1998·Proceedings of the National Academy of Sciences of the United States of America·M Kirschner, J Gerhart
Oct 6, 1999·Current Opinion in Microbiology·C Seoighe, K H Wolfe
Jun 1, 2000·Molecular Biology and Evolution·T PupkoD Graur
Feb 9, 2002·BioEssays : News and Reviews in Molecular, Cellular and Developmental Biology·Reiner A Veitia
Mar 28, 2002·Nucleic Acids Research·A J EnrightC A Ouzounis
May 7, 2002·Gene·Carolina MinguillónJordi Garcia-Fernàndez
Nov 2, 2002·Molecular Biology and Evolution·Matthew V Rockman, Gregory A Wray
Jan 9, 2003·Proceedings of the National Academy of Sciences of the United States of America·Ariel Fernández, Harold A Scheraga
Feb 20, 2003·Proceedings of the National Academy of Sciences of the United States of America·Ariel Fernández, R Stephen Berry
May 14, 2003·Proceedings of the National Academy of Sciences of the United States of America·Ariel FernándezR Stephen Berry
Jul 11, 2003·Nature·Balázs PappLaurence D Hurst
Nov 25, 2003·Science·Michael Lynch, John S Conery
Nov 25, 2003·Nature Reviews. Genetics·Manyuan LongWen Wang
Dec 9, 2003·Proceedings of the National Academy of Sciences of the United States of America·Jing YangWen-Hsiung Li
Jun 29, 2004·Trends in Genetics : TIG·Fyodor A Kondrashov, Eugene V Koonin
Sep 2, 2004·Nature Biotechnology·Ariel Fernández
Sep 7, 2004·Proceedings of the National Academy of Sciences of the United States of America·Ariel Fernández, R Stephen Berry
Dec 16, 2004·Journal of Molecular Evolution·Elizabeth MarlandWen-Hsiung Li
Feb 1, 2005·Trends in Genetics : TIG·Reiner A Veitia
Aug 27, 2005·Molecular Biology and Evolution·Anuphap Prachumwat, Wen-Hsiung Li
Dec 31, 2005·Nucleic Acids Research·E BirneyT J P Hubbard
May 5, 2006·Protein Science : a Publication of the Protein Society·David M KristensenOlivier Lichtarge
Jul 15, 2006·PLoS Computational Biology·Nizar N BatadaMike Tyers
Dec 5, 2006·Journal of Molecular Biology·D B LukatskyE I Shakhnovich
Jan 27, 2007·Bioinformatics·Jianping ChenAriel Fernández
May 22, 2007·Trends in Genetics : TIG·Han Liang, Wen-Hsiung Li
Nov 8, 2011·Genome Biology and Evolution·Corey M HudsonGavin C Conant

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Citations

Aug 12, 2008·Genetics·Wenfeng Qian, Jianzhi Zhang
Aug 12, 2009·BMC Evolutionary Biology·Tobias WarneckeLaurence D Hurst
Oct 13, 2009·Genome Research·Ariel Fernández, Jianping Chen
Jul 14, 2010·The Plant Cell·James A BirchlerReiner A Veitia
Sep 17, 2011·Genome Biology and Evolution·Anke KonradDavid A Liberles
Nov 8, 2011·Genome Biology and Evolution·Corey M HudsonGavin C Conant
Aug 28, 2012·Journal of Molecular Evolution·Alexander E Vinogradov
Mar 14, 2009·Comptes rendus biologies·Olivier JaillonPatrick Wincker
Jul 1, 2008·Trends in Genetics : TIG·Reiner A VeitiaJames A Birchler
Nov 21, 2009·The New Phytologist·James A Birchler, Reiner A Veitia
Feb 10, 2010·The Biochemical Journal·James A Birchler
May 6, 2015·Trends in Biochemical Sciences·Reiner A Veitia, Marie Claude Potier
Dec 5, 2014·PLoS Genetics·Jennifer H WisecaverAntonis Rokas
Aug 22, 2012·Proceedings of the National Academy of Sciences of the United States of America·James A Birchler, Reiner A Veitia
Mar 7, 2012·Proceedings of the National Academy of Sciences of the United States of America·Eugénie PessiaGabriel A B Marais
Oct 8, 2013·PloS One·Ekaterina V MirkinNancy Kleckner
Jan 7, 2014·PloS One·Shenying FangJeffrey E Lee
Oct 26, 2012·Integrative Biology : Quantitative Biosciences From Nano to Macro·Vadim Mozhayskiy, Ilias Tagkopoulos
Jan 7, 2010·Nature Reviews. Genetics·Hideki Innan, Fyodor Kondrashov
Dec 17, 2009·FASEB Journal : Official Publication of the Federation of American Societies for Experimental Biology·Reiner A Veitia
Aug 11, 2020·Molecular Therapy. Methods & Clinical Development·Zhiqiang ChangYan Xu

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Methods Mentioned

BETA
NMR

Software Mentioned

Ensembl

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