Interplay of interlocus gene conversion and crossover in segmental duplications under a neutral scenario
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- dc.contributor.author Hartasánchez Frenk, Diego Andrés, 1982-ca
- dc.contributor.author Vallés-Codina, Oriolca
- dc.contributor.author Brasó-Vives, Marina, 1990-ca
- dc.contributor.author Navarro i Cuartiellas, Arcadi, 1969-ca
- dc.date.accessioned 2015-06-08T08:50:03Z
- dc.date.available 2015-06-08T08:50:03Z
- dc.date.issued 2014ca
- dc.description.abstract Interlocus gene conversion is a major evolutionary force that drives the concerted evolution of duplicated genomic regions. Theoretical models successfully have addressed the effects of interlocus gene conversion and the importance of crossover in the evolutionary fate of gene families and duplications but have not considered complex recombination scenarios, such as the presence of hotspots. To study the interplay between interlocus gene conversion and crossover, we have developed a forward-time simulator that allows the exploration of a wide range of interlocus gene conversion rates under different crossover models. Using it, we have analyzed patterns of nucleotide variation and linkage disequilibrium within and between duplicate regions, focusing on a neutral scenario with constant population size and validating our results with the existing theoretical models. We show that the interaction of gene conversion and crossover is nontrivial and that the location of crossover junctions is a fundamental determinant of levels of variation and linkage disequilibrium in duplicated regions. We also show that if crossover activity between duplications is strong enough, recurrent interlocus gene conversion events can break linkage disequilibrium within duplicates. Given the complex nature of interlocus gene conversion and crossover, we provide a framework to explore their interplay to help increase knowledge on molecular evolution within segmental duplications under more complex scenarios, such as demographic changes or natural selection.en
- dc.description.sponsorship This work has been supported by the Spanish National Institute of Bioinfomatics, a platform of the Instituto de Salud Carlos III (PT13/0001/0026), and the Spanish Government, Grant BFU2012-38236 to A.N.; by grants to D.H. from Conacyt and CSIC (Predoctoral JAE grant); and by the Fondo Europeo de Desarrollo Regional (FEDER) and the Fondo Social Europeo (FSE)en
- dc.format.mimetype application/pdfca
- dc.identifier.citation Hartasanchez DA, Valles-Codina O, Braso-Vives M, Navarro A. Interplay of interlocus gene conversion and crossover in segmental duplications under a neutral scenario. G3. 2014;4(8):1479-89. DOI: 10.1534/g3.114.012435ca
- dc.identifier.doi http://dx.doi.org/10.1534/g3.114.012435
- dc.identifier.issn 2160-1836ca
- dc.identifier.uri http://hdl.handle.net/10230/23762
- dc.language.iso engca
- dc.publisher Genetics Society of Americaca
- dc.relation.ispartof G3. 2014;4(8):1479-89
- dc.relation.projectID info:eu-repo/grantAgreement/ES/3PN/BFU2012-38236
- dc.rights Copyright © 2014 Hartasánchez et al. This is an open-access article distributed under the terms of the Creative Commons Attribution Unported License (http://creativecommons.org/licenses/by/3.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.en
- dc.rights.accessRights info:eu-repo/semantics/openAccessca
- dc.rights.uri http://creativecommons.org/licenses/by/3.0/
- dc.subject.keyword Concerted evolutionen
- dc.subject.keyword Linkage disequilibriumen
- dc.subject.keyword Recombination hotspotsen
- dc.subject.keyword Forward simulationsen
- dc.subject.keyword Increased variationen
- dc.subject.other Genòmica -- Mètodes estadísticsca
- dc.subject.other Expressió gènicaca
- dc.title Interplay of interlocus gene conversion and crossover in segmental duplications under a neutral scenarioen
- dc.type info:eu-repo/semantics/articleca
- dc.type.version info:eu-repo/semantics/publishedVersionca