Reconstruction and analysis of a Kluyveromyces marxianus genome-scale metabolic model
Journal article, 2019

Background: Kluyveromyces marxianus is a thermotolerant yeast with multiple biotechnological potentials for industrial applications, which can metabolize a broad range of carbon sources, including less conventional sugars like lactose, xylose, arabinose and inulin. These phenotypic traits are sustained even up to 45 °C, what makes it a relevant candidate for industrial biotechnology applications, such as ethanol production. It is therefore of much interest to get more insight into the metabolism of this yeast. Recent studies suggested, that thermotolerance is achieved by reducing the number of growth-determining proteins or suppressing oxidative phosphorylation. Here we aimed to find related factors contributing to the thermotolerance of K. marxianus. Results: Here, we reported the first genome-scale metabolic model of Kluyveromyces marxianus, iSM996, using a publicly available Kluyveromyces lactis model as template. The model was manually curated and refined to include the missing species-specific metabolic capabilities. The iSM996 model includes 1913 reactions, associated with 996 genes and 1531 metabolites. It performed well to predict the carbon source utilization and growth rates under different growth conditions. Moreover, the model was coupled with transcriptomics data and used to perform simulations at various growth temperatures. Conclusions: K. marxianus iSM996 represents a well-annotated metabolic model of thermotolerant yeast, which provides a new insight into theoretical metabolic profiles at different temperatures of K. marxianus. This could accelerate the integrative analysis of multi-omics data, leading to model-driven strain design and improvement.

Constraint-based flux analysis

Thermotolerant yeast

Genome-scale metabolic model

Kluyveromyces marxianus

Author

Simonas Marcisauskas

Chalmers, Biology and Biological Engineering, Systems and Synthetic Biology

Boyang Ji

Chalmers, Biology and Biological Engineering, Systems and Synthetic Biology

Jens B Nielsen

Technical University of Denmark (DTU)

Chalmers, Biology and Biological Engineering, Systems and Synthetic Biology

BioInnovation Institute

BMC Bioinformatics

1471-2105 (ISSN)

Vol. 20 1 551

Subject Categories

Other Engineering and Technologies not elsewhere specified

Bioinformatics (Computational Biology)

Bioinformatics and Systems Biology

DOI

10.1186/s12859-019-3134-5

PubMed

31694544

More information

Latest update

11/19/2019