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A genome-scale metabolic model of the lipid-accumulating yeast Yarrowia lipolytica

hal.structure.identifierLaboratoire Bordelais de Recherche en Informatique [LaBRI]
hal.structure.identifierModels and Algorithms for the Genome [ MAGNOME]
dc.contributor.authorLOIRA, Nicolás
hal.structure.identifierMICrobiologie de l'ALImentation au Service de la Santé [MICALIS]
dc.contributor.authorDULERMO, Thierry
hal.structure.identifierMICrobiologie de l'ALImentation au Service de la Santé [MICALIS]
dc.contributor.authorNICAUD, Jean-Marc
hal.structure.identifierLaboratoire Bordelais de Recherche en Informatique [LaBRI]
hal.structure.identifierModels and Algorithms for the Genome [ MAGNOME]
dc.contributor.authorSHERMAN, David
dc.date.accessioned2024-04-15T09:44:07Z
dc.date.available2024-04-15T09:44:07Z
dc.date.issued2012
dc.identifier.issn1752-0509
dc.identifier.urihttps://oskar-bordeaux.fr/handle/20.500.12278/197816
dc.description.abstractEnYarrowia lipolytica is an oleaginous yeast which has emerged as an important microorganism for several biotechnological processes, such as the production of organic acids, lipases and proteases. It is also considered a good candidate for single-cell oil production. Although some of its metabolic pathways are well studied, its metabolic engineering is hindered by the lack of a genome-scale model that integrates the current knowledge about its metabolism. RESULTS: Combining in silico tools and expert manual curation, we have produced an accurate genome-scale metabolic model for Y. lipolytica. Using a scaffold derived from a functional metabolic model of the well-studied but phylogenetically distant yeast S. cerevisiae, we mapped conserved reactions, rewrote gene associations, added species-specific reactions and inflected specialized copies of scaffold reactions to account for species-specific expansion of protein families. We used physiological measures obtained under lab conditions to validate our predictions. CONCLUSIONS: Y. lipolytica iNL895represents the first well-annotated metabolic model of an oleaginous yeast, providing a reference for future metabolic improvement, and a starting point for the metabolic reconstruction of other species in the Yarrowia clade and other oleaginous yeasts.
dc.language.isoen
dc.publisherBioMed Central
dc.subject.enmetabolic modeling
dc.subject.encomparative genomics
dc.subject.enoleaginous yeasts
dc.title.enA genome-scale metabolic model of the lipid-accumulating yeast Yarrowia lipolytica
dc.typeArticle de revue
dc.identifier.doi10.1186/1752-0509-6-35
dc.subject.halSciences du Vivant [q-bio]/Biochimie, Biologie Moléculaire/Génomique, Transcriptomique et Protéomique [q-bio.GN]
dc.subject.halSciences du Vivant [q-bio]/Bio-Informatique, Biologie Systémique [q-bio.QM]
dc.subject.halInformatique [cs]/Bio-informatique [q-bio.QM]
dc.description.sponsorshipEuropeAlternative Fuels and Biofuels for Aircraft Development
bordeaux.journalBMC Systems Biology
bordeaux.page35
bordeaux.volume6
bordeaux.hal.laboratoriesLaboratoire Bordelais de Recherche en Informatique (LaBRI) - UMR 5800*
bordeaux.issue1
bordeaux.institutionUniversité de Bordeaux
bordeaux.institutionBordeaux INP
bordeaux.institutionCNRS
bordeaux.peerReviewedoui
hal.identifierhal-00784406
hal.version1
hal.popularnon
hal.audienceInternationale
hal.origin.linkhttps://hal.archives-ouvertes.fr//hal-00784406v1
bordeaux.COinSctx_ver=Z39.88-2004&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.jtitle=BMC%20Systems%20Biology&rft.date=2012&rft.volume=6&rft.issue=1&rft.spage=35&rft.epage=35&rft.eissn=1752-0509&rft.issn=1752-0509&rft.au=LOIRA,%20Nicol%C3%A1s&DULERMO,%20Thierry&NICAUD,%20Jean-Marc&SHERMAN,%20David&rft.genre=article


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