J. Cremer

Quantifying the varying harvest of fermentation products from the human gut microbiota

The paper quantifies the metabolic flux of fermentation products from the gut microbiota, showing it varies with diet but not microbiota composition.

The differing prevalences of propionate and butyrate producing bacteria in the human gut microbiota

The paper analyzes the prevalence of propionate and butyrate producing pathways in the human gut microbiota across different age groups and birth methods, finding significant variations linked to host physiology.

Coordination Between Cytoplasmic and Envelope Densities Shapes Cellular Geometry in Escherichia coli

This study develops and validates a biophysical model showing that constant ratios of cytoplasmic and membrane protein densities regulate Escherichia coli cell geometry through proteome partitioning and ribosome content.

Changing flows balance nutrient absorption and bacterial growth along the gut

The paper investigates how intestinal flow velocity balances nutrient absorption and bacterial growth in mice, revealing self-regulation mechanisms.

An Optimal Regulation of Fluxes Dictates Microbial Growth In and Out of Steady-State

The paper develops a low-dimensional allocation model to predict microbial growth dynamics by optimizing metabolic and translational fluxes using tRNA turnover data from Escherichia coli.

Coordination of gene expression with cell size enables Escherichia coli to efficiently maintain motility across conditions

This study shows E. coli upregulates motility genes at slow growth to maintain flagella number and motility, while larger cell size at fast growth optimizes resource allocation.

Suboptimal proteome allocation during changing environments constrains bacterial response and growth recovery

This study shows that Escherichia coli's response to changing nutrient conditions is constrained by limited protein synthesis capacity, leading to suboptimal gene expression and slower growth recovery.

Molecular epidemiology of mumps viruses detected in the Netherlands, 2017-2019

The paper analyzes mumps virus molecular epidemiology in the Netherlands 2017-2019, showing that complete genome sequencing provides better resolution than SH+NCRs sequencing.