Differential gene retention as an evolutionary mechanism to generate biodiversity and adaptation in yeasts

dc.contributor.authorMorel, Guillaume
dc.contributor.authorSterck, Lieven
dc.contributor.authorSwennen, Dominique
dc.contributor.authorMarcet-Houben, Marina
dc.contributor.authorOnesime, Djamila
dc.contributor.authorLevasseur, Anthony
dc.contributor.authorJacques, Noémie
dc.contributor.authorMallet, Sandrine
dc.contributor.authorCouloux, Arnaux
dc.contributor.authorLabadie, Karine
dc.contributor.authorAmselem, Joëlle
dc.contributor.authorBeckerich, Jean-Marie
dc.contributor.authorHenrissat, Bernard
dc.contributor.authorVan de Peer, Yves
dc.contributor.authorWincker, Patrick
dc.contributor.authorSouciet, Jean-Luc
dc.contributor.authorGabaldón, Toni
dc.contributor.authorTinsley, Colin R.
dc.contributor.authorCasaregola, Serge
dc.date.accessioned2015-08-14T06:09:08Z
dc.date.available2015-08-14T06:09:08Z
dc.date.issued2015-06
dc.description.abstractThe evolutionary history of the characters underlying the adaptation of microorganisms to food and biotechnological uses is poorly understood. We undertook comparative genomics to investigate evolutionary relationships of the dairy yeast Geotrichum candidum within Saccharomycotina. Surprisingly, a remarkable proportion of genes showed discordant phylogenies, clustering with the filamentous fungus subphylum (Pezizomycotina), rather than the yeast subphylum (Saccharomycotina), of the Ascomycota. These genes appear not to be the result of Horizontal Gene Transfer (HGT), but to have been specifically retained by G. candidum after the filamentous fungi– yeasts split concomitant with the yeasts’ genome contraction. We refer to these genes as SRAGs (Specifically Retained Ancestral Genes), having been lost by all or nearly all other yeasts, and thus contributing to the phenotypic specificity of lineages. SRAG functions include lipases consistent with a role in cheese making and novel endoglucanases associated with degradation of plant material. Similar gene retention was observed in three other distantly related yeasts representative of this ecologically diverse subphylum. The phenomenon thus appears to be widespread in the Saccharomycotina and argues that, alongside neo-functionalization following gene duplication and HGT, specific gene retention must be recognized as an important mechanism for generation of biodiversity and adaptation in yeasts.en_ZA
dc.description.librarianhb2015en_ZA
dc.description.sponsorshipCIFRE fellowship from ANRT and the Centre National Interprofessionnel de l’Economie Laitière (http://www.maison-du-lait.com/fr/les-organisations/ cniel). ANR [French national research agency] grant under the ALIA “Food Microbiomes” project (ANR-08-ALIA-007-02) and an INRA grant under the AIP Bioressources “CRB CIRM” project.en_ZA
dc.description.urihttp://www.nature.com/srepen_ZA
dc.identifier.citationMorel, G, Sterck, L, Swennen, D, Marcet-Houben, M et al 2015, 'Differential gene retention as an evolutionary mechanism to generate biodiversity and adaptation in yeasts', Scientific Reports, vol. 5, art. #11571, pp. 1-17.en_ZA
dc.identifier.issn2045-2322 (online)
dc.identifier.other10.1038/srep11571
dc.identifier.urihttp://hdl.handle.net/2263/49313
dc.language.isoenen_ZA
dc.publisherNature Publishing Group (open access)en_ZA
dc.rights© 2015 Morel et al. This is an open-access article.This work is licensed under a Creative Commons Attribution 4.0 International License.en_ZA
dc.subjectDifferential geneen_ZA
dc.subjectEvolutionary mechanismen_ZA
dc.subjectGenerate biodiversityen_ZA
dc.subjectAdaptation in yeastsen_ZA
dc.titleDifferential gene retention as an evolutionary mechanism to generate biodiversity and adaptation in yeastsen_ZA
dc.typeArticleen_ZA

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