Aude G. Bernheim

This study determines the crystal structure of AbTir, revealing how its coiled-coil domain inhibits NAD+ nucleosidase activity by disrupting symmetry and preventing NAD+ binding site formation.

The paper identifies and characterizes defence hotspots in P2-like phages and P4-like satellites, revealing rapid modular evolution of antiviral systems through gene swapping and recombination.

The paper identifies a family of over 2000 lanthipeptide biosynthetic gene clusters in Actinobacteria with anti-phage function, demonstrating their conservation and novel compound production.

The paper analyzes antiphage system expression across environmental and physiological conditions in bacteria, finding that these systems are regulated by environmental factors and cellular physiology.

This study reveals the structural basis and evolutionary origin of the Lamassu bacterial immune system, showing its adaptation from DNA repair machinery to detect and respond to viral replication.

The paper identifies SIRanc, a human homolog of bacterial antiphage SIR2 proteins, and shows it mediates innate immunity via the TLR pathway by degrading NAD+.

The paper uses language models to predict novel antiphage defense proteins in Actinomycetota, discovering six new defense systems and over 45,000 uncharacterized protein families.

This study identifies evolutionary links between bacterial IS110 transposons and archaeal/eukaryotic RNA modification systems, suggesting RNA-guided mechanisms evolved from transposon components.

This study tracks E. coli dynamics in a human gut over 20 years, showing how strain properties and environmental factors influence diversity and persistence.

The paper develops AntiDefenseFinder to detect anti-defense systems in prokaryotes, phages, and MGEs, identifying 47,981 systems and revealing their distribution and evolutionary dynamics.

This paper predicts phage-bacteria interactions at the strain level using genomic data from Escherichia isolates and shows tailored phage cocktails are more effective.

The paper introduces DefenseFinder, a resource for antiphage defense systems, including a web service, wiki, and databases with structure predictions.

The paper shows that viral proteins activate PARIS-mediated tRNA degradation, and viral tRNAs rescue infection by preventing cleavage.

The paper identifies anti-phage defence systems encoded by sedentary chromosomal integron cassettes in Vibrio cholerae, showing 16 cassettes provide phage resistance.

This study investigates the evolution of viperin genes across prokaryotes and eukaryotes, revealing their conservation, diversification mechanisms, and immune functions.

The paper identifies novel human antiviral genes by comparing conserved antiphage systems across prokaryotes and eukaryotes.

The paper designs gene overlaps to stabilize synthetic circuits in E. coli by preventing loss-of-function mutations through evolutionary constraints.

The paper investigates epistatic interactions between CRISPR and Cas clusters in prokaryotes, finding that multiple CRISPRs can co-occur to enhance immune system effectiveness.