bacteria (other)

This study optimizes DNA transformation in Mesoplasma florum and identifies a candidate recipient strain for genome transplantation, highlighting DNA topology as a key factor in transformation efficiency.

The paper identifies two classes of nanobodies that inhibit Cif, an epoxide hydrolase from Pseudomonas aeruginosa, through distinct structural strategies targeting a shared epitope.

PathoBERT improves bacterial pathogenicity prediction from short reads by combining a DNABERT encoder with attention-based feature extraction, achieving better performance than existing methods.

The paper examines the association between phage and antibiotic resistance in Pseudomonas aeruginosa clinical isolates and finds a positive correlation between the two resistance phenotypes.

This study uses CRISPRi to screen B. subtilis genes across 150 stress conditions, revealing new roles for conserved firmicute genes in protein secretion, cell wall homeostasis, and bacterial competition.

This study evaluates the reliability of using wing biopsies to detect blood-borne pathogens in bats, finding lower detection rates compared to blood but still viable for initial pathogen discovery.

The paper uses large language models to generate human-readable function descriptions for bacterial protein clusters, expanding functional annotations for genome and microbiome analyses.

This paper introduces a Bayesian ordered logistic regression GWAS model for bacterial antimicrobial resistance phenotypes, showing improved variant discovery and MIC prediction by accounting for threshold-dependent effects.

NetSyn groups protein sequences by conserved genomic context to identify functional relationships beyond sequence similarity.

This study compares phenotypic differences in Limnospira platensis strains from America and Africa under controlled and fluctuating light conditions, revealing variations in growth and light stress response mechanisms.

This study shows that loss of EF-P increases survival of Bacillus subtilis to fluoroquinolones, highlighting EF-P's role in susceptibility through post-translational modification and interaction with DNA repair pathways.

This study identifies a novel E3 ligase secreted by Pseudomonas aeruginosa that regulates virulence through ubiquitin modification.

The paper examines how climate influences osmotic stress tolerance in Luteibacter populations, finding distinct genomic strategies in semi-arid and humid strains.

The paper uses an XGBoost classifier to identify novel T6SS effectors in bacterial genomes, validating three new toxins with cytotoxic effects and structural features.

This study surveys genomic surveillance practices in African labs, finding sufficient capacity but highlighting needs for improved infrastructure and standardization.

This study integrates genomic, transcriptomic, and metabolomic analyses to reveal temporally coordinated biosynthetic programs in the rare actinomycete Saccharomonospora xinjiangensis XJ-54 that produce antifungal compounds.

This study shows that wing mechanosensation modulates optic-flow-sensitive descending neurons in butterflies by altering excitability and timing, not visual feature encoding.

The paper shows that reduced cellular responsiveness in Pseudomonas putida predicts population collapse and demonstrates a feedback control system to maintain stable bioprocesses.

A sparse mixture-of-experts DNA model conditioned on hyperbolic taxonomy embeddings learns better microbial representations than its taxonomy-free twin and comes close to Evo2-7B in probing and fine-tuning at lower compute.

This study shows that carbon source determines metabolic states in Propionibacterium freudenreichii, affecting redox balance and vitamin B12 biosynthesis.

This study identifies natural product-derived azaphilones as selective scaffolds for covalent lysine liganding in live cells, revealing bacterial chemotaxis as a major target pathway.

The paper identifies the role of biosurfactant polysaccharide in regulating myxospore dispersal by reducing surface stickiness, while revealing the true outermost coat as exopolysaccharide.

This study characterizes SufC ATPases from Mycobacterium tuberculosis and Mycolicibacterium smegmatis, identifies potential inhibitors, and highlights functional differences between the two homologs.

This study investigates how Burkholderia thailandensis responds to antibiotics and phages in spatial refuges, revealing distinct subpopulation behaviors and interactions.

Proteome-wide variant calling builds amino acid phylogenomic alignments orders of magnitude faster than a BUSCO marker pipeline, with similar tree signal in three of four test taxa.

The paper identifies an acetone carboxylation pathway in Arctic Ocean photoheterotrophic bacteria, linking it to a Gammaproteobacteria species and its ecological significance.

This study shows that loss of type I restriction-modification methyltransferases in Pseudomonas aeruginosa increases fluoroquinolone persistence through enhanced SOS response and slower growth.

The paper identifies FtsZ paralogs in Hyphomicrobiales, showing they may fine-tune cell division, with FtsZ1 inhibiting division when overexpressed in Agrobacterium tumefaciens.

This study shows that increasing matrix production in Salmonella biofilms reorganizes their structure, altering antimicrobial killing patterns and reducing antimicrobial survival.

The paper screens environmental bacteria to discover new polymyxin variants, which show varied antibacterial activity compared to colistin.