Integrative omics analysis reveals a limited transcriptional shock after yeast interspecies hybridization

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  • dc.contributor.author Hovhannisyan, Hrant, 1992-
  • dc.contributor.author Saus Martínez, Ester
  • dc.contributor.author Ksiezopolska, Ewa
  • dc.contributor.author Roberts, Alex J. Hinks
  • dc.contributor.author Louis, Edward J.
  • dc.contributor.author Gabaldón Estevan, Juan Antonio, 1973-
  • dc.date.accessioned 2020-10-15T09:37:55Z
  • dc.date.available 2020-10-15T09:37:55Z
  • dc.date.issued 2020
  • dc.description.abstract The formation of interspecific hybrids results in the coexistence of two diverged genomes within the same nucleus. It has been hypothesized that negative epistatic interactions and regulatory interferences between the two sub-genomes may elicit a so-called genomic shock involving, among other alterations, broad transcriptional changes. To assess the magnitude of this shock in hybrid yeasts, we investigated the transcriptomic differences between a newly formed Saccharomyces cerevisiae × Saccharomyces uvarum diploid hybrid and its diploid parentals, which diverged ∼20 mya. RNA sequencing (RNA-Seq) based allele-specific expression (ASE) analysis indicated that gene expression changes in the hybrid genome are limited, with only ∼1-2% of genes significantly altering their expression with respect to a non-hybrid context. In comparison, a thermal shock altered six times more genes. Furthermore, differences in the expression between orthologous genes in the two parental species tended to be diminished for the corresponding homeologous genes in the hybrid. Finally, and consistent with the RNA-Seq results, we show a limited impact of hybridization on chromatin accessibility patterns, as assessed with assay for transposase-accessible chromatin using sequencing (ATAC-Seq). Overall, our results suggest a limited genomic shock in a newly formed yeast hybrid, which may explain the high frequency of successful hybridization in these organisms.
  • dc.description.sponsorship This work was funded in part by the European Union’s Horizon 2020 research and innovation program under the Marie Sklodowska-Curie grant agreement no. H2020-MSCAITN-2014-642095. TG group also acknowledges support from the Spanish Ministry of Economy, Industry, and Competitiveness (MEIC) for the EMBL partnership, and grants “Centro de Excelencia Severo Ochoa” SEV-2012-0208, and BFU2015-67107 co-founded by European Regional Development Fund (ERDF); from the CERCA Program/Generalitat de Catalunya; from the Catalan Research Agency (AGAUR) SGR857; and grants from the European Union’s Horizon 2020 Research and Innovation Program under the grant agreement ERC-2016-724173. TG also receives support from an INB grant (PT17/0009/0023—ISCIIISGEFI/ERDF)
  • dc.format.mimetype application/pdf
  • dc.identifier.citation Hovhannisyan H, Saus E, Ksiezopolska E, Roberts AJH, Louis EJ, Gabaldón T. Integrative omics analysis reveals a limited transcriptional shock after yeast interspecies hybridization. Front Genet. 2020 May 7; 11: 404. DOI: 10.3389/fgene.2020.00404
  • dc.identifier.doi http://dx.doi.org/10.3389/fgene.2020.00404
  • dc.identifier.issn 1664-8021
  • dc.identifier.uri http://hdl.handle.net/10230/45488
  • dc.language.iso eng
  • dc.publisher Frontiers Media
  • dc.relation.ispartof Frontiers in Genetics. 2020 May 7;11:404
  • dc.relation.projectID info:eu-repo/grantAgreement/EC/H2020/642095
  • dc.relation.projectID info:eu-repo/grantAgreement/EC/H2020/724173
  • dc.relation.projectID info:eu-repo/grantAgreement/ES/1PE/ BFU2015-67107
  • dc.rights © 2020 Hovhannisyan, Saus, Ksiezopolska, Hinks Roberts, Louis and Gabaldón. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY)
  • dc.rights.accessRights info:eu-repo/semantics/openAccess
  • dc.rights.uri https://creativecommons.org/licenses/by/4.0/
  • dc.subject.other Hibridació
  • dc.subject.other Genòmica
  • dc.subject.other Seqüència de nucleòtids
  • dc.subject.other Expressió gènica
  • dc.title Integrative omics analysis reveals a limited transcriptional shock after yeast interspecies hybridization
  • dc.type info:eu-repo/semantics/article
  • dc.type.version info:eu-repo/semantics/publishedVersion

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