The bidirectional relationship between metabolism and cell cycle control

FF Diehl, KM Sapp, MG Vander Heiden - Trends in Cell Biology, 2024 - cell.com
The relationship between metabolism and cell cycle progression is complex and
bidirectional. Cells must rewire metabolism to meet changing biosynthetic demands across …

Halomonas as a chassis

JW Ye, GQ Chen - Essays in Biochemistry, 2021 - portlandpress.com
With the rapid development of systems and synthetic biology, the non-model bacteria,
Halomonas spp., have been developed recently to become a cost-competitive platform for …

Turnover number predictions for kinetically uncharacterized enzymes using machine and deep learning

A Kroll, Y Rousset, XP Hu, NA Liebrand… - Nature …, 2023 - nature.com
The turnover number k cat, a measure of enzyme efficiency, is central to understanding
cellular physiology and resource allocation. As experimental k cat estimates are unavailable …

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 …

Metabolic heterogeneity and cross-feeding within isogenic yeast populations captured by DILAC

S Kamrad, C Correia-Melo, L Szyrwiel, SK Aulakh… - Nature …, 2023 - nature.com
Genetically identical cells are known to differ in many physiological parameters such as
growth rate and drug tolerance. Metabolic specialization is believed to be a cause of such …

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 …

Enzyme expression kinetics by Escherichia coli during transition from rich to minimal media depends on proteome reserves

C Wu, M Mori, M Abele, A Banaei-Esfahani… - Nature …, 2023 - nature.com
Bacterial fitness depends on adaptability to changing environments. In rich growth medium,
which is replete with amino acids, Escherichia coli primarily expresses protein synthesis …

Proteome allocations change linearly with the specific growth rate of Saccharomyces cerevisiae under glucose limitation

J Xia, BJ Sánchez, Y Chen, K Campbell… - Nature …, 2022 - nature.com
Saccharomyces cerevisiae is a widely used cell factory; therefore, it is important to
understand how it organizes key functional parts when cultured under different conditions …

Ageing-associated long non-coding RNA extends lifespan and reduces translation in non-dividing cells

S Anver, AF Sumit, XM Sun, A Hatimy… - EMBO …, 2024 - embopress.org
Genomes produce widespread long non-coding RNAs (lncRNAs) of largely unknown
functions. We characterize aal1 (ageing-associated lncRNA), which is induced in quiescent …

Volatile organic compounds mediated endogenous microbial interactions in Chinese baijiu fermentation

H Hao, R Yan, Z Miao, B Wang, J Sun, B Sun - International Journal of …, 2022 - Elsevier
Microorganisms release abundant volatile organic compounds, and these compounds have
important roles in distant interactions and communication. However, the effects of microbial …