Bacteriophages and microbial interactions

Ecological ubiquity and phylogeny drive nestedness in phages-bacteria networks and shape the bacterial defensome

The paper investigates phage-bacterial interactions in plant agroecosystems, finding nested network structures and phylogeny-driven defense systems.

Spatial and depth structuring predominate over temporal variation in Mediterranean grassland soil viral communities

This study examines soil viral communities in Mediterranean grasslands, finding that spatial factors dominate over temporal variation in shaping viral community structure.

Stable coexistence of Citrobacter rodentium with a lytic bacteriophage during in vivo murine infection

This paper investigates phage-pathogen interactions in vivo using Citrobacter rodentium and a novel lytic phage, showing stable coexistence without reducing bacterial burden or inflammation.

Persistent virulent phages exist in bacterial isolates

The paper identifies virulent phage genomes in bacterial assemblies, challenging the assumption that virulent phages cannot persist in bacterial cells.

Virus-Host Interaction Gets Lousy: P1vir Phage Development Upon Impaired RNA Global Regulation in Escherichia coli Δhfq Mutant Cells

This study shows that Hfq loss in E. coli impairs P1vir phage development by disrupting gene expression and host reprogramming.

Quasineutral dynamics shape coexistence and clearance in a model ofin vitro phage-bacteria interactions

The paper analyzes a mathematical model of phage-bacteria interactions to show coexistence and clearance dynamics governed by quasineutral equilibria and bifurcations.

Differential translocation of bacteriophages across the intestinal barrier in health and Crohn's disease

The paper investigates phage translocation across the intestinal barrier in health and Crohn's disease, finding increased phage presence in blood samples from CD patients.

Prophage-marine diazotroph interplay shapes both biofilm structure and nitrogen release

This study shows that prophages in Vibrio diazotrophicus enhance biofilm formation and nitrogen release through phage-mediated lysis, revealing a viral role in marine nitrogen cycling.

High-throughput transposon mutagenesis defines the essential genome of diverse phages

This study uses transposon mutagenesis and deep sequencing to identify essential genes in diverse phages and enables rapid genetic engineering of phage genomes.

Ecological Determinants of Altruism in Prokaryote Antivirus Defense

The paper models prokaryotic antivirus defense strategies and finds that immunity is preferred at high viral pressure and PCD at low host population size, with potential antagonism from overinvestment in immunity.

Coevolution of a phage cocktail constrains reversible phenotypic resistance in K. pneumoniae

This study shows that coevolution with a phage cocktail reduces reversible phenotypic resistance in K. pneumoniae by forcing mutation-based resistance.

Lytic anti-Staphylococcus aureus phage M963 resensitizes its host to methicillin by a tarS-dependent mechanism

This paper identifies a lytic phage M963 that resensitizes MRSA to methicillin via a tarS-dependent mechanism, showing synergy with antibiotics.

Co-evolutionary dynamics of defense systems and anti-defense genes in chromosomes and mobile genetic elements of Enterobacteriaceae

The paper analyzes DEF and anti-DEF gene dynamics across Enterobacteriaceae genomes, finding differences in turnover rates between chromosomal and mobile genetic elements.

Functional Characterization of 123 Genes from Mycobacteriophage LeBron Uncovers Cytotoxic Gene Families in Cluster L1

This study functionally characterizes 123 genes from mycobacteriophage LeBron, identifying 39 cytotoxic genes, including novel families, and highlights functional conservation across phage clusters.

Bacterial resistance and co-existence with temperate bacteriophages in the human gut

This study investigates mechanisms of bacterial resistance and co-existence with temperate bacteriophages in the human gut using longitudinal sampling and experimental evolution.

Bacteriophage PAK_P3 genome structuration and dynamics during infection of Pseudomonas aeruginosa reveal specific interactions patterns

The paper investigates the 3D genome structuration and dynamics of bacteriophage PAK_P3 during infection of Pseudomonas aeruginosa, revealing specific interactions between phage and host genomes.

Engineered Proteins Mimic ssRNA Phage to Disrupt Type IV Pili

This study identifies phage proteins that induce pilus detachment in Acinetobacter, offering insights into phage infection mechanisms and potential strategies to disrupt bacterial virulence.

A synthetic cell phage cycle

This study creates a synthetic cell-free system where T7 phages infect synthetic cells, demonstrating a complete viral life cycle in vitro.

Environment and physiology shape antiphage system expression

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.

Distinct Virome and Bacteriome Profiles of Term and Preterm Placentas from African, Asian and European Women

The paper analyzes virome and bacteriome profiles in term and preterm placentas from African, Asian, and European women to explore associations with spontaneous preterm birth.

A family of linear plasmid phages that detect a quorum-sensing autoinducer exists in multiple bacterial species

The paper identifies a family of temperate phages that detect a quorum-sensing autoinducer, DPO, across multiple bacterial species, expanding understanding of phage-bacterial communication.

Ecology of hydrocarbon degradation in widespread viruses

This study identifies virus-encoded hydrocarbon-degrading genes across diverse environments, showing their significant contribution to global hydrocarbon degradation.

Novel Escherichia coli Phages Representing a Distinct Genus within Stephanstirmvirinae: Genome and Host Range Characteristics

This study identifies six novel Escherichia coli phages from wastewater, classifies five as a new genus within Stephanstirmvirinae, and highlights host-specific infection mechanisms.

Isolation and characterization of TayeBlu, a novel bacteriophage of Azotobacter vinelandii

The paper isolates and characterizes a novel bacteriophage TayeBlu that infects Azotobacter vinelandii, showing nitrogen availability affects infection dynamics and revealing its genomic features.

Protein Structure Informed Bacteriophage Genome Annotation with Phold

Phold pairs ProstT5-predicted 3Di tokens with Foldseek searches against 1,363,704 curated phage structures, annotating 49.4% of CDS in 1,419 INPHARED genomes versus 34.7% for Pharokka MMseqs2.

Leveraging defense system modularity to discover anti-phage systems

The paper identifies new anti-phage defense systems in E. coli by analyzing modular defensive domains, validating several candidates with anti-phage activity.

Architecture and mechanism of a dual-enzyme retron system in prokaryotic immunity

This study characterizes the Ec78 retron system, revealing its dual-enzyme effector complex and the molecular mechanism of phage clearance through cryo-EM structures and functional analysis.

Plasmid copy number affects the DNA methylation-driven expression dynamics of the CfrBI restriction-modification system and impacts phage restriction

This study shows that plasmid copy number affects the expression dynamics and phage resistance of the CfrBI R-M system, with medium-copy plasmids providing the highest resistance.

ssDNA phage FLiP resides in dsDNA form in resistant Flavobacterium host

The study investigates phage resistance mechanisms in Flavobacterium hosts against ssDNA phage FLiP, finding that resistant hosts may harbor FLiP genomes in dsDNA form, suggesting lysogeny and a potential survival strategy.

Viral lysis of a toxigenic diatom triggers a microbial response mimicking hastened senescence

This study shows that viral lysis of a toxigenic diatom accelerates senescence, shifts microbial community structure, and enhances DOM processing through polysaccharide degradation.