Development of a genome scale metabolic model for the lager hybrid yeast S. pastorianus to understand evolution of metabolic pathways in industrial settings.
Timouma, S.; Balarezo-Cisneros, L. N.; Schwartz, J.-M.; Delneri, D.
Show abstract
In silico tools such as genome-scale metabolic models (GSMM) have shown to be powerful for metabolic engineering of microorganisms. Here, we created the iSP_1513 GSMM for the aneuploid hybrid S. pastorianus CBS1513 to allow top-down computational approaches to predict the evolution of metabolic pathways and to aid strain optimisation and media engineering in production processes. The iSP_1513 comprises 4062 reactions, 1808 alleles and 2747 metabolites, and takes into account the functional redundancy in the gene-protein-reaction rule caused by the presence of orthologous genes. Moreover, a universal algorithm to constrain GSMM reactions using transcriptome data was developed as a python library and enabled the integration of temperature as parameter. Essentiality datasets, growth data on various carbohydrates and volatile metabolites secretion were used to validate the model. Overall, the iSP_1513 GSMM represent an important step towards understanding the metabolic capabilities, evolutionary trajectories and adaptation potential of S. pastorianus in different industrial settings.
Matching journals
The top 9 journals account for 50% of the predicted probability mass.
Similar papers in this journal
- A comprehensive genome-scale model for Rhodosporidium toruloides IFO0880 accounting for functional genomics and phenotypic data 96%
- Development of a dedicated Golden Gate Assembly platform (RtGGA) for Rhodotorula toruloides 95%
- Engineering Clostridium thermocellum for production of 2,3-butanediol from cellulose 95%
Similar papers in this journal
- Calcium starvation leads to strain-specific gene regulation of lipid and carotenoid production in Mucor Circinelloides 96%
- Genomic and Transcriptomic Characterization of Carbohydrate-Active Enzymes in the Anaerobic Fungus Neocallimastix cameroonii var. constans 93%
- PARPAL: PARalog Protein Redistribution using Abundance and Localization in Yeast Database 93%
Similar papers in this journal
- Dynamic genome-scale modeling of Saccharomyces cerevisiae unravels mechanisms for ester formation during alcoholic fermentation 97%
- High-quality genome-scale metabolic model of Aurantiochytrium sp. T66 96%
- Insights into Yeast Response to Chemotherapeutic Agent through Time Series Genome-Scale Metabolic Models 93%
Similar papers in this journal
- Engineering the yeast Saccharomyces cerevisiae for the production of L-(+)-ergothioneine 96%
- Genomic and metabolic instability during long-term fermentation of an industrial Saccharomyces cerevisiae strain engineered for C5 sugar utilization. 94%
- Evolving a new efficient mode of fructose utilization for improved bioproduction in Corynebacterium glutamicum 94%
Similar papers in this journal
"Similar papers" are the closest papers from that journal in the model's embedding space. They show what the match is built on, but the ranking comes mostly from a classifier over the whole training set, not from these examples alone.