S. Katz

Escherichia coli adaptation under prolonged resource exhaustion is characterized by extreme parallelism and frequent historical contingency

This study shows E. coli continuously adapts genetically for six years under resource exhaustion, with high parallelism and frequent historical contingency in mutation patterns.

Pseudomonas Putida Dynamics of Adaptation under Prolonged Resource Exhaustion

This study examines genetic adaptation in Pseudomonas putida during prolonged resource exhaustion, showing convergent mutation patterns and mutator emergence, with some similarities to Escherichia coli.

Multi-omic Profiling Reveals Early Immunological Indicators for Identifying COVID-19 Progressors

The paper identifies early immunological indicators of severe COVID-19 by analyzing multi-omic data from the immediate post-diagnosis phase.

Compensatory adaptation does not fully alleviate the costs associated with rifampicin resistance and occurs predominantly through off-target mutations

This study shows compensatory mutations do not fully offset rifampicin resistance costs and mostly occur outside the drug target, with convergent pathways across populations.

Population level genetic memory of prior metabolic adaptation in E. coli

This study shows E. coli maintains genetic memory of prior metabolic adaptations, enabling rapid re-adaptation to consume butyrate after resource exhaustion.

Density-dependent effects are the main determinants of variation in growth dynamics between closely related bacterial strains

The paper models growth and death dynamics of E. coli strains, showing that density-dependent inhibition and resource efficiency, not growth/death rates, explain strain variability.

Culture volume influences the dynamics of adaptation under long-term stationary phase

This study shows that culture volume affects genetic adaptation dynamics in E. coli during long-term stationary phase, with higher volumes leading to stronger positive selection on mutations.

Dynamics of mutation accumulation and adaptation during three years of evolution under long-term stationary phase

This study tracks genetic adaptation and mutation dynamics in E. coli over three years in long-term stationary phase, showing convergent mutation accumulation and varying mutation rates among clones.

Adaptations accumulated under prolonged resource exhaustion are highly transient

This study shows that genetic adaptations in E. coli under prolonged resource exhaustion are rapidly purged when resources are restored, and recovery depends on mutator status.