Bacteriophages and microbial interactions

This study engineers P4-like phage particles with single and dual antimicrobial actions for bacterial infection treatment, demonstrating improved production and payload delivery.

The paper identifies viral carbohydrate-active genes across diverse viral lineages using a hierarchical orthology framework and reveals their evolutionary and functional diversity.

The paper models bacterial DNA inversion dynamics in Bacteroides fragilis under phage predation, revealing a structured, multi-locus response with persistent and transient phase-variable contributions.

This study identifies biogeographic patterns of freshwater giant viruses using MAGs from deep lakes, revealing cosmopolitan and restricted species, and factors influencing their distribution.

This study isolates and characterizes two bacteriophages active against vancomycin-resistant Enterococcus faecium (VREfm) and multidrug-resistant E. faecium from India, showing different lysis efficiencies and host ranges.

This paper shows that R-pyocin selective pressure can induce chromosomal deletions in Pseudomonas aeruginosa, leading to loss of multidrug resistance and restoration of aminoglycoside sensitivity.

This paper shows that trained phages can limit bacterial evolution to costly antibiotic resistance pathways by eliminating cost-free resistance routes.

This paper develops a method to discover virulent phages against antibiotic-resistant pathogens by combining environmental sampling, 16S rRNA sequencing, and a portable device for phage enrichment.

The paper develops a computational pipeline to identify high-confidence bacteriophage receptor-binding protein candidates for foodborne pathogen detection using deep learning and structural analysis.

The paper introduces PHORAGER, a pipeline for identifying prophages in bacterial genomes, and reports the discovery of 23,132 putative prophages in ESKAPE pathogens.

This study shows that therapeutic bacteriophages clear from the body following second-order kinetics, challenging first-order assumptions and informing dose design.

This paper determines the structure of the Salmonella phage epsilon15 tailspike, identifies multiple O-antigen binding sites, and reveals its dual enzymatic role in de-acetylation and cleavage.

This study determines the structural basis of phage terminase recognition by Avs2 and Upx, revealing distinct binding mechanisms despite structural differences.

The paper identifies 41 endogenous polinton-like viruses and 36 virophage sequences in the genome of Halocafeteria seosinensis, revealing genetic exchange and co-occurrence of these viral elements.

The paper investigates how viral dynamics influence carbon metabolism in peat microcosms amended with catechin, showing that viral lysis redistributes intermediates to sustain methane suppression.

The paper investigates the structure and function of the portal protein in Staphylococcus aureus bacteriophage 80α, showing temperature-dependent ring formation and domain-specific roles in assembly and DNA packaging.

The paper identifies 90 structurally distinct STAND NTPase families in bacteria and archaea that recognize phage proteins, revealing their role in antiviral defense.

This paper identifies Aqs1, a phage-encoded protein that inhibits type IV pilus function in multiple Gram-negative bacteria by targeting the PilB ATPase.

This paper identifies two pathways in phage VP882: quorum-sensing-driven lysis and stress-mediated host growth suppression, with QtiQ inactivating a complex that causes growth arrest.

This study evaluates the respiratory safety of two Staphylococcus aureus bacteriophages in human and mouse models, finding no adverse effects on epithelial integrity or inflammation.

This study evaluates phage activity against E. faecalis isolates from infective endocarditis, finding that 83% of isolates were susceptible to at least one phage, and phage cocktails or combinations with antibiotics improved bacterial killing and survival in a model organism.

The paper models phage life-history traits, showing optimal balance between lysis time and burst size, and predicts how interventions and environmental conditions affect these traits.

This study shows fluoroquinolone antibiotics induce prophage lytic cycles in Streptococcus anginosus, revealing CRISPR-prophage interactions and cross-species horizontal gene transfer potential.

The paper introduces a minimal model to explain how temperate phages make lysis-lysogeny decisions based on multiplicity of infection and host factors, showing how asymmetry can arise from simple coupling to host machinery.

The paper identifies convergent cysteine enrichment in gut phage MCPs, suggesting structural adaptations for capsid stability in the gut environment.

The paper shows that diverse microbial communities promote phage-bacteria coexistence by limiting resistance evolution in bacteria, increasing phage persistence.

The paper introduces a dynamical model to study how gut virome influences microbiome recovery after antibiotic-induced dysbiosis, identifying ecological thresholds and a firewall mechanism for pathogen suppression.

The paper models how phage lysis timing in response to host physiology affects competition under fluctuating nutrient conditions, showing delayed lysis is advantageous in feast-famine environments.

This study investigates how heterotrophic bacteria affect phage infection of Prochlorococcus and Synechococcus, finding that heterotrophs enable host recovery and confer resistance through non-genetic metabolic changes.

This study identifies 42 bacterial genes involved in Klebsiella phage infection using RB-TnSeq, revealing cross-family resistance and genus-specific gene dependencies.