Widespread inter- and intra-domain horizontal gene transfer of d-amino acid metabolism enzymes in eukaryotes

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• dc.contributor.author Naranjo-Ortíz, Miguel A.
• dc.contributor.author Brock, Matthias
• dc.contributor.author Brunke, Sascha
• dc.contributor.author Hube, Bernhard
• dc.contributor.author Marcet Houben, Marina
• dc.contributor.author Gabaldón Estevan, Juan Antonio, 1973-
• dc.date.accessioned 2024-03-26T07:13:57Z
• dc.date.available 2024-03-26T07:13:57Z
• dc.date.issued 2016
• dc.description.abstract Analysis of the growing number of available fully-sequenced genomes has shown that Horizontal Gene Transfer (HGT) in eukaryotes is more common than previously thought. It has been proposed that genes with certain functions may be more prone to HGT than others, but we still have a very poor understanding of the selective forces driving eukaryotic HGT. Recent work uncovered that D-amino acid racemases have been commonly transferred from bacteria to fungi, but their role in the receiving organisms is currently unknown. Here, we set out to assess whether D-amino acid racemases are commonly transferred to and between eukaryotic groups. For this we performed a global survey that used a novel automated phylogeny-based HGT-detection algorithm (Abaccus). Our results revealed that at least 7.0% of the total eukaryotic racemase repertoire is the result of inter- or intra-domain HGT. These transfers are significantly enriched in plant-associated fungi. For these, we hypothesize a possible role for the acquired racemases allowing to exploit minoritary nitrogen sources in plant biomass, a nitrogen-poor environment. Finally, we performed experiments on a transferred aspartate-glutamate racemase in the fungal human pathogen Candida glabrata, which however revealed no obvious biological role.
• dc.description.sponsorship 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 European Union and ERC Seventh Framework Programme (FP7/2007-2013) under grant agreements FP7-PEOPLE-2013-ITN-606786 and ERC-2012-StG-310325; from the Catalan Research Agency (AGAUR) SGR857, and grant from the European Union's Horizon 2020 research and innovation programme under the Marie Sklodowska-Curie grant agreement No H2020-MSCA-ITN-2014-642095. This work has been partially supported via the Center for Sepsis Control and Care (CSCC, grant 01EO1002 to BH) by the German Federal Ministry of Education and Health (BMBF).
• dc.format.mimetype application/pdf
• dc.identifier.citation Naranjo-Ortíz MA, Brock M, Brunke S, Hube B, Marcet-Houben M, Gabaldón T. Widespread inter- and intra-domain horizontal gene transfer of d-amino acid metabolism enzymes in eukaryotes. Front Microbiol. 2016 Dec 20;7:2001. DOI: 10.3389/fmicb.2016.02001
• dc.identifier.doi http://dx.doi.org/10.3389/fmicb.2016.02001
• dc.identifier.issn 1664-302X
• dc.identifier.uri http://hdl.handle.net/10230/59567
• dc.language.iso eng
• dc.publisher Frontiers
• dc.relation.ispartof Frontiers in Microbiology. 2016 Dec 20;7:2001
• dc.relation.projectID info:eu-repo/grantAgreement/EC/FP7/606786
• dc.relation.projectID info:eu-repo/grantAgreement/ES/1PE/SEV-2012-0208
• dc.relation.projectID info:eu-repo/grantAgreement/ES/1PE/BFU2015-67107
• dc.relation.projectID info:eu-repo/grantAgreement/EC/FP7/310325
• dc.relation.projectID info:eu-repo/grantAgreement/EC/H2020/642095
• dc.rights © 2016 Naranjo-Ortíz, Brock, Brunke, Hube, Marcet-Houben and Gabaldón. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor 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 Horizontal gene transfer
• dc.subject.keyword D-Amino acid metabolism
• dc.subject.keyword Amino acid racemase
• dc.subject.keyword D-Amino acid oxidase
• dc.subject.keyword Candida glabrata
• dc.subject.keyword Fungi
• dc.subject.keyword Abaccus
• dc.title Widespread inter- and intra-domain horizontal gene transfer of d-amino acid metabolism enzymes in eukaryotes
• dc.type info:eu-repo/semantics/article
• dc.type.version info:eu-repo/semantics/publishedVersion