[HTML][HTML] Relieving metabolic burden to improve robustness and bioproduction by industrial microorganisms

J Mao, H Zhang, Y Chen, L Wei, J Liu, J Nielsen… - Biotechnology …, 2024 - Elsevier
Metabolic burden is defined by the influence of genetic manipulation and environmental
perturbations on the distribution of cellular resources. The rewiring of microbial metabolism …

Innovation trends in industrial biotechnology

J Nielsen, CB Tillegreen, D Petranovic - Trends in biotechnology, 2022 - cell.com
Microbial fermentations are used for the sustainable production of a range of products. Due
to increasing trends in the food sector toward plant-based foods and meat and dairy product …

Metabolomics reveal nanoplastic-induced mitochondrial damage in human liver and lung cells

S Lin, H Zhang, C Wang, XL Su, Y Song… - … science & technology, 2022 - ACS Publications
Plastic debris in the global biosphere is an increasing concern, and nanoplastic (NPs)
toxicity in humans is far from being understood. Studies have indicated that NPs can affect …

Deep learning-based kcat prediction enables improved enzyme-constrained model reconstruction

F Li, L Yuan, H Lu, G Li, Y Chen, MKM Engqvist… - Nature Catalysis, 2022 - nature.com
Enzyme turnover numbers (k cat) are key to understanding cellular metabolism, proteome
allocation and physiological diversity, but experimentally measured k cat data are sparse …

Bioenergetics in environmental adaptation and stress tolerance of aquatic ectotherms: linking physiology and ecology in a multi-stressor landscape

I Sokolova - Journal of Experimental Biology, 2021 - journals.biologists.com
Energy metabolism (encompassing energy assimilation, conversion and utilization) plays a
central role in all life processes and serves as a link between the organismal physiology …

Reconstruction, simulation and analysis of enzyme-constrained metabolic models using GECKO Toolbox 3.0

Y Chen, J Gustafsson, A Tafur Rangel, M Anton… - Nature …, 2024 - nature.com
Genome-scale metabolic models (GEMs) are computational representations that enable
mathematical exploration of metabolic behaviors within cellular and environmental …

Mitochondrial ATP generation is more proteome efficient than glycolysis

Y Shen, HV Dinh, ER Cruz, Z Chen… - Nature chemical …, 2024 - nature.com
Metabolic efficiency profoundly influences organismal fitness. Nonphotosynthetic organisms,
from yeast to mammals, derive usable energy primarily through glycolysis and respiration …

Reconstruction of a catalogue of genome-scale metabolic models with enzymatic constraints using GECKO 2.0

I Domenzain, B Sánchez, M Anton… - Nature …, 2022 - nature.com
Genome-scale metabolic models (GEMs) have been widely used for quantitative exploration
of the relation between genotype and phenotype. Streamlined integration of enzyme …

Whole-cell modeling in yeast predicts compartment-specific proteome constraints that drive metabolic strategies

IE Elsemman, A Rodriguez Prado, P Grigaitis… - Nature …, 2022 - nature.com
When conditions change, unicellular organisms rewire their metabolism to sustain cell
maintenance and cellular growth. Such rewiring may be understood as resource re …

Adaptations in metabolism and protein translation give rise to the Crabtree effect in yeast

C Malina, R Yu, J Björkeroth… - Proceedings of the …, 2021 - National Acad Sciences
Aerobic fermentation, also referred to as the Crabtree effect in yeast, is a well-studied
phenomenon that allows many eukaryal cells to attain higher growth rates at high glucose …