Allison J. Lopatkin

This study shows that different antibiotics create distinct plasmid transfer dynamics, revealing drug-specific residual conjugation windows that are decoupled from growth inhibition.

The paper identifies YfjB as a host reprogramming factor that enables plasmid dissemination by altering host transcription and metabolism.

This paper develops a foundation model for microbial growth dynamics using self-supervised learning on diverse datasets, enabling accurate reconstruction and prediction of growth patterns and antibiotic responses.

The paper quantifies the inoculum effect in β-lactamase-expressing bacteria and shows it is governed by a biphasic trade-off between metabolism and growth rate.

The paper shows that purine and pyrimidine synthesis pathways influence the strength of the inoculum effect differently for beta-lactam and aminoglycoside antibiotics.

The paper develops a general rule for predicting mutualistic system outcomes and introduces a calibration method to apply it without full mechanistic understanding.

This paper defines and distinguishes resistance and resilience in bacterial responses to antibiotics, showing their distinct cellular and population-level mechanisms and implications for treatment optimization.