Uri Gophna

The paper analyzes CRISPR spacers from metagenomic data to reveal patterns of CRISPR targeting across Earth's biomes, identifying selection pressures and non-host phage interactions.

The paper studies RNA phage infection dynamics in E. coli, showing bacterial population rebound despite viral replication and cell death.

This study shows CRISPR-Cas targeting in Haloferax volcanii increases within-species mating and recombination, promoting gene exchange while limiting inter-species transfer.

This paper discovers a new archaeal virus that suppresses host immunity gene transcription, leading to faster growth of its host when the virus is removed.

This study shows a TIR-SAVED effector can act independently as an antiviral defense, clearing viruses without its cyclase partner and using a host-produced second messenger.

The paper identifies Cas11b as an internally translated protein in an archaeal CRISPR-Cas system, showing its necessity for effective interference and Cascade complex formation.

The paper identifies a provirus-encoded CRISPR-Cas system in Haloferax lucentense and shows it relies on a plasmid-encoded system for adaptation, suggesting horizontal transfer and cooperative immunity.

The paper identifies point-mutant cheater viruses in MS2 bacteriophage that disrupt the replication cycle with dual defects and advantages, and shows helper mutations often co-occur nearby.

This paper develops an optimized plaque assay to detect chronically infecting haloarchaeal viruses by modifying agar concentration and incubation temperature, successfully identifying two viruses and enabling novel virus discovery.

This study shows that the archaeal CBASS system H-CBASS2 protects against both lytic and chronic viruses by depleting NAD+, with different kinetics depending on infection type.

This study compares homologous recombination and heteropolyploidy maintenance between Haloferax volcanii and Haloferax mediterranei, finding differences in recombination rates and genetic linkage.

The paper analyzes E. coli genomes from IBD patients to identify disease-specific genomic adaptations and their functional implications.

The paper introduces AssociVar, a statistical method to detect true mutations from MinION sequencing data by distinguishing them from random sequencing errors.

The study shows that colony-level dynamics, not individual-level changes, drive fur microbiome variation in Egyptian fruit bats, suggesting the colony as a biological unit for studying host-microbiome interactions.

This study measures allele-specific expression in archaeal hybrids to reveal cis-regulatory evolution in prokaryotes, finding lineage-specific selection on kinase genes under low phosphate conditions.