Bacteriophages and microbial interactions

The paper analyzes the global distribution and diversity of pL6-family plasmids in haloarchaea, identifying conserved gene arrangements and active transcription in metagenomic data.

This study compares total metagenomes and viromes to assess phage communities in bee guts, finding that viromes enrich for phage in honey bees but total metagenomes capture more diverse phage in bumble bees.

The paper characterizes the BREX system in Salmonella, determines the structure of PglX, and shows how rational engineering expands phage targeting and host motif methylation.

This study examines how Kratosvirus quantuckense infection disrupts the diel growth and division cycle of Aureococcus anophagefferens and increases biomass export.

This study shows that phage-mediated resolution of genetic conflict in Pseudomonas aeruginosa lysogens leads to evolutionary changes in CRISPR immunity and genome structure.

The paper identifies a phage protein that inhibits type IV restriction enzymes in drug-resistant enterococci, revealing how phages evolve to overcome bacterial defense mechanisms.

This study characterizes prophages in Clostridium clostridioforme LM41, identifying 15 prophages and their potential roles in host fitness and genetic diversity.

This study identifies a novel restriction system within Vibrio cholerae pathogenicity island 2 that targets non-methylated plasmids and has anti-phage activity against Tevenvirinae phages.

This study identifies a diverse range of viruses in oil reservoirs and their ecological roles in regulating microbial communities and biogeochemical cycles.

The paper determines the structure of the HK97 small terminase:DNA complex, revealing a novel DNA binding mechanism involving a circular protein that recognizes DNA through a substructure formed by adjacent protomers.

The paper demonstrates that bacterial reverse transcriptases synthesize extrachromosomal genes via rolling-circle amplification to confer antiviral immunity.

This study reveals the molecular architecture and infection-sensing mechanism of the bacterial PARIS defense system, showing how it is triggered by a phage counterdefense protein.

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

DepoScope uses large language models to accurately annotate phage depolymerases and their domains, improving detection through sequence and amino-acid level predictions.

The paper identifies virus-encoded glycosyltransferases that hypermodify DNA with diverse glycans, revealing new biosynthetic pathways and their potential roles in genome defense and host-pathogen interactions.

This study shows bacteria can survive phage infection through mutation or by forming persisters, which survive without mutation and retain wild-type phage sensitivity.

This study shows quorum sensing in V. alginolyticus increases CPS-dependent phage infection by upregulating ugd gene expression and CPS synthesis.

The paper identifies a widespread gut phage lineage, Ca. Heliusvirales, present in ancient and modern humans, and links its diversity to lifestyle and disease.

This study identifies Gpi, a PLE-encoded inhibitor of ICP1's DNA packaging motor, and shows how PLEs use multiple strategies to overcome inhibition and promote their own spread.

This study characterizes a novel temperate phage, Samy, and shows it increases bacterial dispersal under in vitro stress conditions in Streptomyces ambofaciens.

The paper identifies a 99.5% ANI gap in bacteriophage genomes that can define intra-species units, proposing 'genomovars' as a standardized classification.

This study shows Bdellovibrio bacteriovorus can grow without prey using amino acids as carbon sources, revealing their metabolic flexibility and potential for biotechnological applications.

This paper shows that one-step growth curves underestimate the mean latent period of bacteriophages due to cellular-level variability in lysis timing, and proposes a computational framework to correct this bias.

The paper shows bacteria use ubiquitin-like protein conjugation to block phage assembly and infectivity.

This paper develops an engineered filamentous phage that delivers CRISPR-AsCas12f1 to target Ralstonia solanacearum's virulence gene hrpB, effectively controlling bacterial wilt in tobacco.

The paper compares DNA preparation methods for virome sequencing, finding that T7 DNA polymerase treatment improves representation of both ssDNA and dsDNA viruses compared to MDA or xGen kit.

The paper isolates and characterizes five novel Streptomyces siphoviruses, expanding phage diversity and contributing to understanding phage-host interactions in Streptomyces.

This study uses a mathematical model to analyze how lysis inhibition in T-even phages provides competitive advantages in different environments.

The paper shows a mobile intron in bacteriophage ΦPA3 uses its homing endonuclease to interfere with co-infecting phage ΦKZ, providing a competitive reproductive advantage.

This study evaluates how phages interact with antibacterials using standardized assays and finds that phages can increase or decrease antibiotic MICs depending on the strain and combination.