Bacteriophages and microbial interactions

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

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

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

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

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

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

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

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.

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

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.

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.

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

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

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.

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

This paper demonstrates that prophages can be used to synthesize functional extracellular DNA superstructures via rolling circle replication in bacterial biofilms.

The paper systematically identifies TIR-based immune signaling systems in bacteria, finding they exist in 8% of bacterial genomes and use signaling molecules similar to those in plant and human immunity.

This study identifies genes involved in phage infection and resistance using TraDIS in E. coli, revealing two proteins critical for phage recognition and infection.

The paper reveals a DNA recognition-mimicry switch mechanism in SPBeta-like phages where an antirepressor inactivates a repressor via DNA mimicry, enabling lytic induction under SOS conditions and in the absence of neighboring prophages.

This study identifies 9,697 novel archaeal proviruses across 19 phyla, revealing broad host infectivity, antiviral systems, and auxiliary metabolic genes that impact biogeochemical cycles.

The paper investigates the structural differences between two capsid sizes in bacteriophage P1, revealing the role of protein appendages in DNA packaging and capsid morphogenesis.

The paper compares DNA extraction and virome processing methods to show how they affect the characterization of human gut viral communities, finding that MDA significantly biases results.

The paper characterizes 15 phages infecting Xanthomonas arboricola pv. pruni, identifying a new genus and species and proposing taxonomic changes within the Anamaviridae family.

The paper isolates and characterizes four novel bacteriophages against Moraxella bovis, finding high genomic similarity among three and distinct properties in MB43.

The paper quantifies dual predation by a wild-type BALO and lytic phage on two bacterial hosts, showing host-specific synergy in prey clearance.

This study uses transcriptomic analysis of Mycobacteriophage D29 infection to show balanced expression of phage genome arms and inhibited host transporter and VapC target gene expression.

This study examines cytokine and immunoglobulin responses in nine patients undergoing intravenous phage therapy, finding heterogeneous cytokine patterns and IgM responses that vary with immune status and pathogen.

The paper describes Pera virus, a giant virus infecting Pedospumella sp., and reports its morphological features and ecological dynamics in freshwater lakes.

This paper isolates and characterizes viable Bdellovibrio from human fecal samples, revealing genomic conservation and prey specialization in the human gut microbiome.

This study examines how temperature and surface chemistry interact to affect viral survival and reproduction, finding non-additive effects that decouple stability from replication.