Please use this identifier to cite or link to this item: http://hdl.handle.net/1822/31599

TitleiOD907, the first genome-scale metabolic model for the milk yeast Kluyveromyces lactis
Author(s)Dias, Oscar
Pereira, R. M.
Gombert, Andreas Karoly
Ferreira, E. C.
Rocha, I.
KeywordsSystems biology
Metabolic engineering
Fungi
Bioinformatics
Genome-scale metabolic model
Issue date2014
PublisherWiley
JournalBiotechnology Journal
CitationDias, O.; Pereira, R. M.; Gombert, Andreas K.; Ferreira, E. C.; Rocha, I., iOD907, the first genome-scale metabolic model for the milk yeast Kluyveromyces lactis. Biotechnology Journal, 9(6), 776-790, 2014
Abstract(s)We describe here the first genome-scale metabolic model of Kluyveromyces lactis, iOD907. It is partially compartmentalized (4 compartments), composed of 1867 reactions and 1476 metabolites. The iOD907 model performed well when assessing the positive growth of K. lactis to Biolog experiments and to an online catalogue of strains that provides information on carbon sources in which K. lactis is able to grow. Chemostat experiments were used to adjust non-growth-associated energy requirements, and the model proved accurate when predicting the biomass, oxygen and carbon dioxide yields. In silico knockouts predicted in vivo phenotypes accurately when compared to published experiments. The iOD907 genome-scale metabolic model complies with the MIRIAM standards for the annotation of enzymes, transporters, metabolites and reactions. Moreover, it contains direct links to KEGG (for enzymes, metabolites and reactions) and to TCDB for transporters, allowing easy comparisons to other models. Furthermore, this model is provided in the well-established SBML format, which means that it can be used in most metabolic engineering platforms, such as OptFlux or Cobra. The model is able to predict the behavior of K. lactis under different environmental conditions and genetic perturbations. Furthermore, it can also be important in the design of minimal media and will allow insights on the milk yeast's metabolism, as well as identifying metabolic engineering targets for the improvement of the production of products of interest by performing simulations and optimizations.
TypeArticle
URIhttp://hdl.handle.net/1822/31599
DOI10.1002/biot.201300242
ISSN1860-6768
e-ISSN1860-7314
Publisher versionhttp://onlinelibrary.wiley.com/journal/10.1002/(ISSN)1860-7314
Peer-Reviewedyes
AccessOpen access
Appears in Collections:CEB - Publicações em Revistas/Séries Internacionais / Publications in International Journals/Series

Files in This Item:
File Description SizeFormat 
document_17750_1.pdf1,1 MBAdobe PDFView/Open

Partilhe no FacebookPartilhe no TwitterPartilhe no DeliciousPartilhe no LinkedInPartilhe no DiggAdicionar ao Google BookmarksPartilhe no MySpacePartilhe no Orkut
Exporte no formato BibTex mendeley Exporte no formato Endnote Adicione ao seu ORCID