St. Elmo Wilken

Does specific membrane surface area constrain Escherichia coli energy spillage and therefore aerobic and anaerobic growth rates?

This study quantifies how specific membrane surface area (sMSA) constrains Escherichia coli growth rates and energy metabolism across aerobic and anaerobic conditions.

Steady state ratios in bipartite population models emerge through obligate cross-feeding

The paper shows that stable biomass ratios emerge in mutually obligate cross-feeding microbial systems and can be predicted from measurable parameters.

Multi-omic data fusion reveals the in vivo enzyme kinetics of Vibrio natriegens at the genome-scale

This study measures in vivo enzyme turnover numbers in Vibrio natriegens using multi-omic data fusion, revealing enzymes are 14-fold faster than E. coli and showing machine learning underestimates these kinetics.

FROG Analysis Ensures the Reproducibility of Genome Scale Metabolic Models

The paper introduces FROG analysis to standardize reproducibility assessments of genome-scale metabolic models, resulting in full reproducibility of all tested models.

COBREXA.jl: constraint-based reconstruction and exascale analysis

COBREXA.jl is a Julia package for scalable constraint-based metabolic modeling, designed for high-performance computing environments and multi-organism community models.