Bacteriophages and microbial interactions

Single-cell-resolved frequency and modes of phage interactions with prokaryoplankton in the tropical surface ocean

The paper quantifies phage interactions with prokaryoplankton in the tropical ocean, revealing non-infective associations and genetic exchange between phages.

Characterization of a novel amber-reassigned Crassvirales genus infecting Segatella copri from Egypt

The paper identifies and characterizes a novel Crassvirales phage infecting Segatella copri from Egypt, showing amber stop codon reassignment and geographic diversity.

Genomic Characterization and Therapeutic Potential of the Lytic Bacteriophage Curly against Klebsiella pneumoniae in Human Innate Immune Cells and a Murine Pneumonia Model

This study characterizes a bacteriophage, Curly, against Klebsiella pneumoniae, showing its efficacy in reducing bacterial burden and inflammation in human cells and a mouse model.

Avs2 drives non-canonical tetrameric assembly of trypsin-like domain for anti-phage defense

The paper elucidates the molecular mechanism of the Avs2-trypsin-MBL system, revealing how phage terminase recognition triggers tetramerization and activation of the system for anti-phage defense.

The Updateable Human Virome Database and toolkit: A novel framework for human virome analysis

The paper introduces UHVDB, an updateable human virome database and toolkit, and demonstrates its utility in analyzing oral/airway samples from Cystic Fibrosis patients.

First Evidence of Dicistroviruses Infecting Protists

The paper identifies five new dicistroviruses infecting green algae, expanding the known host range of the Dicistroviridae family beyond arthropods.

PhageLysData: an evidence-aware and AI-ready dataset of phage lytic enzymes and depolymerases

PhageLysData is a curated, AI-ready dataset of phage lytic enzymes and depolymerases, providing annotated sequences, structural data, and embeddings for machine learning applications.

Species-specific prophage induction by ciprofloxacin in human gut metagenomes

This study investigates prophage induction in human gut metagenomes in response to ciprofloxacin, finding species-specific increases in prophage-to-bacterial host read depth ratios.

An expanded realm of anti-CRISPR-associated proteins and regulatory mechanisms

The paper identifies structured RNA motifs and Aca proteins that regulate anti-CRISPR gene expression in bacteriophages, revealing new regulatory mechanisms beyond DNA-binding HTH regulators.

Diversity of Novel Bacteriophages Infecting Ammonia-Oxidizing Bacteria

The paper characterizes 45 novel bacteriophages infecting ammonia-oxidizing bacteria, revealing their taxonomic diversity and functional roles in nitrification.

Bacteriophage density influences the rate of resistance evolution

This study shows that phage resistance evolution is driven by ecological factors like competitive interactions and fitness costs, not mutation rates, and depends on phage and host concentrations.

Pervasive phosphorylation by phage T7 kinase disarms bacterial defenses

This study reveals that phage T7 kinase broadly phosphorylates host and phage proteins, disabling bacterial defense systems through widespread phosphorylation.

Certain Aquatic Eukaryotes Harbor an OLD-Like Immune Defense System

The paper identifies old-like genes in certain aquatic eukaryotes, suggesting a potential antiviral defense system evolutionarily related to prokaryotic anti-phage systems.

A multireceptor six-phage cocktail consistently controls bacterial leaf spot of lettuce caused by Xanthomonas hortorum pv. vitians and improves harvest quality.

The paper develops a six-phage cocktail that effectively controls bacterial leaf spot in lettuce and improves harvest quality through field trials.

Functional profiling of ESKAPE viromes uncovers resistance-limiting phage-host dynamics

The paper constructs a comprehensive ESKAPE virome resource, revealing phages' dual roles in targeting pathogens and limiting resistance spread through antagonizing plasmids and ARGs.

Insights into Genome Ejection by a Therapeutic phiKMV-like Bacteriophage

This paper presents an integrative structural analysis of the bacteriophage Ar-KM, revealing structural polymorphism and the role of ejection proteins in genome ejection.

Anti-phage defence systems are enriched in multidrug-resistant Pseudomonas aeruginosa

The paper analyzes the defensome of Pseudomonas aeruginosa across clinical datasets, finding that multidrug-resistant isolates have more defence systems while cystic fibrosis isolates have fewer, with implications for phage therapy.

PhaGAMeToo: A semi-automated workflow for merging structural and functional annotation of phage genomes and generation of a GenBank file

PhaGAMeToo merges functional annotations from phage genomes and generates submission-ready GenBank files using Pharokka, VIBRANT, and BLASTP.

A Novel Metric for Quantifying the Sustainability of Phage-Mediated Bacterial Suppression

This paper introduces the Sustainability Index (SusI) to quantify the duration of phage-mediated bacterial growth suppression and demonstrates its utility in evaluating phage efficacy.

A comprehensive phage-bacteria interaction atlas links phage lineage and capsule serotype to genome-guided machine learning prediction in Klebsiella pneumoniae

This paper constructs a phage-bacteria interaction atlas for Klebsiella pneumoniae and develops a genome-guided machine learning model to predict phage-host interactions, outperforming traditional methods.

Cyclase-generated 3,5-cGMP activates PucsarTIR antiphage defense through a stepwise zig-zag aligned filament assembly

The paper identifies Pucsar, a bacterial antiphage system that uses 3,5-cGMP generated by a cyclase to activate TIR effectors through a stepwise filament assembly process.

Osmotic conditions shape fitness gains and resistance mechanisms during E. coli and T4 phage co-evolution

This study shows how osmotic conditions influence co-evolution between E. coli and T4 phage, with different resistance mechanisms emerging under varying osmolalities.

Viruses, Proviruses and Satellites from Asgard Archaea Enrichments Reveal Complex Microbial Interactions

The paper identifies viruses and proviruses associated with Asgard archaea and reveals virus-mediated interactions with bacteria, expanding understanding of microbial symbiosis in eukaryogenesis.

Virome DNA stable isotope probing reveals diverse active soil virus communities across ecosystem contexts

The paper uses stable isotope probing to identify active soil viruses involved in carbon cycling, finding that viral lysis is influenced by carbon availability and microbial growth traits.

Minimal diadenylate cyclases have been co-opted to detect phage immune evasion

The paper identifies PanDA, a bacterial defense system that uses a minimal diadenylate cyclase to detect phage evasion by sequestering c-di-AMP, leading to membrane permeabilization.

Bacterial diadenylate cyclase domains synthesize diverse nucleotide signals in anti-phage defense

The paper identifies a bacterial anti-phage defense system called Panoptoo, which uses DAC enzymes to synthesize nucleotide signals that counteract phage immune evasion.

Re-evaluating Reported Pseudolysogeny in Phage T3: T3 and T7 Show Similar Propagation Responses to Nutrient Limitation and Media Switching

This study re-examines pseudolysogeny in phage T3 and T7 under nutrient limitation, finding that both show impaired propagation, and that T3's reported latent state could not be reproduced.

Single-step monolithic chromatography efficiently purifies diverse Pseudomonas aeruginosa phages with therapeutic-grade endotoxin reduction

This paper develops a single-step chromatography method to purify Pseudomonas aeruginosa phages with high endotoxin reduction and protein impurity removal, suitable for therapeutic use.

Evidence for the acquisition of a proteorhodopsin-like rhodopsin by a chrysophyte-infecting giant virus

This paper describes the isolation and characterization of the first cultivated chrysophyte-infecting virus, ChrysoHV, which encodes a proteorhodopsin not previously found in viral genomes.

Engineering P4 satellite phage particles with single and dual antimicrobial actions

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