title: Yeast metabolic chassis designs for diverse biotechnological products.
abstract: The diversity of industrially important molecules for which microbial production routes have been experimentally demonstrated is rapidly increasing. The development of economically viable producer cells is, however, lagging behind, as it requires substantial engineering of the host metabolism. A chassis strain suitable for production of a range of molecules is therefore highly sought after but remains elusive. Here, we propose a genome-scale metabolic modeling approach to design chassis strains of Saccharomyces cerevisiae - a widely used microbial cell factory. For a group of 29 products covering a broad range of biochemistry and applications, we identified modular metabolic engineering strategies for re-routing carbon flux towards the desired product. We find distinct product families with shared targets forming the basis for the corresponding chassis cells. The design strategies include overexpression targets that group products by similarity in precursor and cofactor requirements, as well as gene deletion strategies for growth-product coupling that lead to non-intuitive product groups. Our results reveal the extent and the nature of flux re-routing necessary for producing a diverse range of products in a widely used cell factory and provide blueprints for constructing pre-optimized chassis strains.
authors.affiliation: European Molecular Biology Laboratory, EMBL, Heidelberg, Germany.
authors.forename: Paula
authors.initials: P
authors.lastname: Jouhten
authors.affiliation: Department of Bioprocess Engineering, Lodz University of Technology, Poland.
authors.forename: Tomasz
authors.initials: T
authors.lastname: Boruta
authors.affiliation: European Molecular Biology Laboratory, EMBL, Heidelberg, Germany.
authors.forename: Sergej
authors.initials: S
authors.lastname: Andrejev
authors.affiliation: European Molecular Biology Laboratory, EMBL, Heidelberg, Germany.
authors.forename: Filipa
authors.initials: F
authors.lastname: Pereira
authors.affiliation: University of Minho, Braga, Portugal.
authors.forename: Isabel
authors.initials: I
authors.lastname: Rocha
authors.affiliation: European Molecular Biology Laboratory, EMBL, Heidelberg, Germany.
authors.forename: Kiran Raosaheb
authors.initials: KR
authors.lastname: Patil
mesh_terms: D001709:Biotechnology / Q000379:methods; D016000:Cluster Analysis; D004734:Energy Metabolism; D017353:Gene Deletion; D005800:Genes, Fungal / Q000235:genetics; D060847:Metabolic Engineering / Q000379:methods*; D053858:Metabolic Networks and Pathways; D055432:Metabolomics / Q000145:classification / Q000379:methods; D012441:Saccharomyces cerevisiae / Q000235:genetics / Q000378:metabolism*; D049490:Systems Biology / Q000379:methods