Genome variation in the model halophilic bacterium Salinibacter ruber

Mostra el registre complet Registre parcial de l'ítem

• dc.contributor.author González-Torres, Pedro
• dc.contributor.author Gabaldón Estevan, Juan Antonio, 1973-
• dc.date.accessioned 2019-11-18T08:33:04Z
• dc.date.available 2019-11-18T08:33:04Z
• dc.date.issued 2018
• dc.description.abstract The halophilic bacterium Salinibacter ruber is an abundant and ecologically important member of halophilic communities worldwide. Given its broad distribution and high intraspecific genetic diversity, S. ruber is considered one of the main models for ecological and evolutionary studies of bacterial adaptation to hypersaline environments. However, current insights on the genomic diversity of this species is limited to the comparison of the genomes of two co-isolated strains. Here, we present a comparative genomic analysis of eight S. ruber strains isolated at two different time points in each of two different Mediterranean solar salterns. Our results show an open pangenome with contrasting evolutionary patterns in the core and accessory genomes. We found that the core genome is shaped by extensive homologous recombination (HR), which results in limited sequence variation within population clusters. In contrast, the accessory genome is modulated by horizontal gene transfer (HGT), with genomic islands and plasmids acting as gateways to the rest of the genome. In addition, both types of genetic exchange are modulated by restriction and modification (RM) or CRISPR-Cas systems. Finally, genes differentially impacted by such processes reveal functional processes potentially relevant for environmental interactions and adaptation to extremophilic conditions. Altogether, our results support scenarios that conciliate "Neutral" and "Constant Diversity" models of bacterial evolution.
• dc.description.sponsorship PG-T was an FPI-MINECO fellow. TG group acknowledges support of the Spanish Ministry of Economy and Competitiveness grants, ‘Centro de Excelencia Severo Ochoa 2013–2017’ SEV-2012-0208, and BFU2015-67107 cofounded by European Regional Development Fund (ERDF); from the CERCA Program/Generalitat de Catalunya; from the Catalan Research Agency (AGAUR) SGR857, and grant from the European Union’s Horizon 2020 Research and Innovation Program under the grant agreement ERC-2016-724173 the Marie Sklodowska-Curie grant agreement No. H2020-MSCA-ITN-2014-642095. We acknowledge the support of the Spanish Ministry of Economy, Industry and Competitiveness (MEIC) to the EMBL partnership.
• dc.format.mimetype application/pdf
• dc.identifier.citation González-Torres P, Gabaldón T. Genome variation in the model halophilic bacterium Salinibacter ruber. Front Microbiol. 2018;9:1499. DOI: 10.3389/fmicb.2018.01499
• dc.identifier.doi http://dx.doi.org/10.3389/fmicb.2018.01499
• dc.identifier.issn 1664-302X
• dc.identifier.uri http://hdl.handle.net/10230/42877
• dc.language.iso eng
• dc.publisher Frontiers
• dc.relation.ispartof Frontiers in Microbiology. 2018;9:1499
• dc.relation.projectID info:eu-repo/grantAgreement/ES/1PE/BFU2015-67107
• dc.relation.projectID info:eu-repo/grantAgreement/EC/H2020/724173
• dc.relation.projectID info:eu-repo/grantAgreement/EC/H2020/642095
• dc.rights © 2018 González-Torres and Gabaldón. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY) (http://creativecommons.org/licenses/by/4.0/). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
• dc.rights.accessRights info:eu-repo/semantics/openAccess
• dc.rights.uri http://creativecommons.org/licenses/by/4.0/
• dc.subject.keyword Salinibacter ruber
• dc.subject.keyword Homologous recombination (HR)
• dc.subject.keyword Core genomes
• dc.subject.keyword Intraspecific diversity
• dc.subject.keyword Comparative genomics
• dc.title Genome variation in the model halophilic bacterium Salinibacter ruber
• dc.type info:eu-repo/semantics/article
• dc.type.version info:eu-repo/semantics/publishedVersion