title: Xylose-induced dynamic effects on metabolism and gene expression in engineered Saccharomyces cerevisiae in anaerobic glucose-xylose cultures.
abstract: Xylose is present with glucose in lignocellulosic streams available for valorisation to biochemicals. Saccharomyces cerevisiae has excellent characteristics as a host for the bioconversion, except that it strongly prefers glucose to xylose, and the co-consumption remains a challenge. Further, since xylose is not a natural substrate of S. cerevisiae, the regulatory response it induces in an engineered strain cannot be expected to have evolved for its utilisation. Xylose-induced effects on metabolism and gene expression during anaerobic growth of an engineered strain of S. cerevisiae on medium containing both glucose and xylose medium were quantified. The gene expression of S. cerevisiae with an XR-XDH pathway for xylose utilisation was analysed throughout the cultivation: at early cultivation times when mainly glucose was metabolised, at times when xylose was co-consumed in the presence of low glucose concentrations, and when glucose had been depleted and only xylose was being consumed. Cultivations on glucose as a sole carbon source were used as a control. Genome-scale dynamic flux balance analysis models were simulated to analyse the metabolic dynamics of S. cerevisiae. The simulations quantitatively estimated xylose-dependent flux dynamics and challenged the utilisation of the metabolic network. A relative increase in xylose utilisation was predicted to induce the bi-directionality of glycolytic flux and a redox challenge even at low glucose concentrations. Remarkably, xylose was observed to specifically delay the glucose-dependent repression of particular genes in mixed glucose-xylose cultures compared to glucose cultures. The delay occurred at a cultivation time when the metabolic flux activities were similar in the both cultures.
authors.affiliation: VTT Technical Research Centre of Finland Ltd, P.O. Box 1000, 02044 VTT, Espoo, Finland.
authors.forename: Susanne
authors.initials: S
authors.lastname: Alff-Tuomala
authors.affiliation: VTT Technical Research Centre of Finland Ltd, P.O. Box 1000, 02044 VTT, Espoo, Finland.
authors.forename: Laura
authors.initials: L
authors.lastname: Salusjärvi
authors.affiliation: VTT Technical Research Centre of Finland Ltd, P.O. Box 1000, 02044 VTT, Espoo, Finland.
authors.forename: Dorothee
authors.initials: D
authors.lastname: Barth
authors.affiliation: VTT Technical Research Centre of Finland Ltd, P.O. Box 1000, 02044 VTT, Espoo, Finland.
authors.forename: Merja
authors.initials: M
authors.lastname: Oja
authors.affiliation: VTT Technical Research Centre of Finland Ltd, P.O. Box 1000, 02044 VTT, Espoo, Finland.
authors.forename: Merja
authors.initials: M
authors.lastname: Penttilä
authors.affiliation: VTT Technical Research Centre of Finland Ltd, P.O. Box 1000, 02044 VTT, Espoo, Finland.
authors.forename: Juha-Pekka
authors.initials: JP
authors.lastname: Pitkänen
authors.affiliation: VTT Technical Research Centre of Finland Ltd, P.O. Box 1000, 02044 VTT, Espoo, Finland.
authors.forename: Laura
authors.initials: L
authors.lastname: Ruohonen
authors.affiliation: VTT Technical Research Centre of Finland Ltd, P.O. Box 1000, 02044 VTT, Espoo, Finland. paula.jouhten@embl.de.|EMBL, European Molecular Biology Laboratory, Meyerhofstraße 1, 69117, Heidelberg, Germany. paula.jouhten@embl.de.
authors.forename: Paula
authors.initials: P
authors.lastname: Jouhten
mesh_terms: D000693:Anaerobiosis; D018533:Biomass; D003470:Culture Media / Q000737:chemistry; D004187:Disaccharides / Q000378:metabolism*; D005285:Fermentation; D015870:Gene Expression; D005818:Genetic Engineering; D005947:Glucose / Q000378:metabolism; D008031:Lignin / Q000737:chemistry; D053858:Metabolic Networks and Pathways / Q000235:genetics; D046228:Microarray Analysis; D012441:Saccharomyces cerevisiae / Q000235:genetics* / Q000254:growth & development / Q000378:metabolism*; D014994:Xylose / Q000378:metabolism*
chemical_list: D003470:Culture Media; D004187:Disaccharides; C036909:lignocellulose; C061908:xylose-glucose; D008031:Lignin; D014994:Xylose; D005947:Glucose
keywords: Anaerobic; Gene expression; Metabolic modelling; Saccharomyces cerevisiae; Xylose