Microbial Natural Products and Biosynthesis

An Integrated Miniaturized Metabologenomics Workflow for High-Throughput Actinomycetes Prioritization

This study develops a miniaturized metabologenomics workflow for high-throughput actinomycetes screening, identifying seven isolates active against MRSA and Enterococcus faecium.

Old Compound, New Context: Naphthocyclinones Mediate Microbial Competition in Wild Bee Nests

This study identifies naphthocyclinones as antibiotics produced by Streptomyces hederae in wild bee nests, mediating bacterial competition and showing potential against Paenibacillus larvae.

Extracellular vesicle packaging of a supercluster-encoded antimicrobial combination with enhanced potency against fungal biofilms

This study identifies co-packaging of two antimicrobial compounds in extracellular vesicles, showing enhanced potency against fungal biofilms compared to individual compounds.

Agent K: An Agent-Orchestrated Pipeline for Mapping Genes to Biosynthetic Pathway towards Metabolite Discovery

Agent K automates the mapping of bacterial genomes to biosynthetic pathways and metabolite discovery using an agent-orchestrated framework with a large-language model.

Exploring the antibiotic-producing capabilities of Canadian High Arctic bacteria

This study screens Arctic bacteria to discover antibacterial compounds, identifying koreenceine A from a Pseudomonas isolate and confirming its antibiotic activity through genetic analysis.

A conserved NLR activation switch governs global transcriptional control of antibiotic biosynthesis in Streptomyces

This study identifies a conserved NLR activation switch in bacterial AfsR that regulates antibiotic biosynthesis and reveals its evolutionary conservation across Actinomycetota.

Tertiary structure of a Nif11-like leader peptide mediates protein-protein interactions with a RiPP biosynthetic enzyme

The paper reports the solution structure of a Nif11-LP leader peptide and shows how its tertiary structure mediates protein-protein interactions with a RiPP biosynthetic enzyme.

Extracts of Bacillus proteolyticus strain OSUB18 exhibit cytostatic activity

The paper investigates the anticancer potential of extracts from Bacillus proteolyticus strain OSUB18, showing broad-spectrum cytostatic activity with limited toxicity to normal cells.

Structural and biochemical characterisation of an iterative GCN5-related N-acetyltransferase required for fungal siderophore tailoring

This study characterizes SidG, a GNAT enzyme in Aspergillus fumigatus, revealing its iterative acetylation mechanism for siderophore biosynthesis.

Late-Stage Posttranslational Assembly of Fosfazinomycins

This paper identifies the final steps in fosfazinomycin biosynthesis, revealing an unexpected use of RiPP machinery to assemble phosphonate and hydrazine moieties.

Heterologous Reconstitution of 4-Amidopentadienoate Biosynthesis Identifies the PKS Machinery Responsible for Warhead Formation

This study reconstitutes the APD biosynthesis pathway in E. coli to identify the PKS machinery responsible for warhead formation.

Generative Design of New-to-nature Biosynthetic Assembly Lines with Genomic Language Modeling

This paper uses a genomic language model to design and optimize a synthetic biosynthetic pathway for producing a non-natural molecule, achieving a 9.4-fold increase in production.

Antibacterial and Anticancer Activities of Insulicolides from Streptomyces sp. UL09; An Endophyte of Ulva rigida C. Agardh

This study isolates Streptomyces sp. UL09 from Ulva rigida and identifies insulicolides B and C, which show antibacterial and anticancer activity.

The coculture of Fomitopsis betulina with Escherichia coli induces a nutritional stress and triggers secondary metabolism pathways.

This study shows that co-culturing Fomitopsis betulina with Escherichia coli induces nutritional stress and activates secondary metabolism pathways in the fungus.

BGC Atlas v2: biosynthetic gene clusters with taxonomic and environmental context at scale

BGC Atlas v2 expands the collection of predicted biosynthetic gene clusters to over 16 million, providing taxonomic and environmental context for natural product discovery.

Bacterial-derived cyclic lipopeptides suppress dauer arrest in C. elegans

This study identifies Massetolide F, a bacterial cyclic lipopeptide, as a molecule that suppresses dauer arrest in C. elegans by inducing acid sphingomyelinase expression.

Genome-resolved metagenomics reveals metabolically versatile Actinobacteria with extensive biosynthetic capacity in Hawaiian steam vents

The paper reconstructs and analyzes Actinobacterial MAGs from Hawaiian steam vents, revealing their metabolic versatility and biosynthetic potential.

Structural and Stereochemical Elucidation of Cyanochelin C, a Siderophore Associated with Novel Class of Cyanobacterial Acyl Hydrolases

Cyanochelin C, a non-acylated peptide siderophore from Atacama Desert Myxacorys chilensis, was fully stereochemically resolved; its gene cluster carries CcsQ, a putative deacylase from a cyanobacteria-specific, siderophore-linked acylase lineage.

BGC-QUAST: a quality assessment tool for genome mining software

BGC-QUAST evaluates and compares BGC predictions across samples, assemblies, and tools to facilitate biosynthetic potential analysis.

Conserved cis and trans communication domains mediate module interaction in glycopeptide antibiotic NRPS assembly lines

The paper identifies trans- and cis-COM domains in NRPS systems that mediate enzyme communication, revealing a unified model for maintaining assembly line fidelity in glycopeptide antibiotic biosynthesis.

Genome mining of coastal cenote sediment-associated Streptomyces sp. NCA360 strain uncovers novel biosynthetic gene clusters and their regulatory architecture

Markers of biosynthetic innovation in the Cyanobacteria

The paper identifies taxonomic and ecological hotspots of biosynthetic potential in cyanobacteria by analyzing 939 genomes and evaluating indicators of biosynthetic innovation.

Genome evolution during the domestication of an antibiotic-producing Streptomyces strain

This study analyzes genomic changes in Streptomyces clavuligerus strains during domestication, showing how mutations and rearrangements enhance antibiotic production while reducing metabolic flexibility.

A New Enzyme Family Catalyzing Methyllanthionine Sulfoxide Formation in Anti-phage Lanthipeptides

The paper identifies CoiH as an enzyme that catalyzes the formation of a sulfoxide group in methyllanthionine of anti-phage lanthipeptides.

Uncovering bioactive metabolites from the Taxus wallichiana endophyte Annulohypoxylon purpureonitens using reverse metabolomics

This study identifies bioactive metabolites from the endophytic fungus Annulohypoxylon purpureonitens using metabolomics and bioactivity screening, revealing compounds with antibacterial, antioxidant, and cytotoxic properties.

Sequence-Derived Representations versus Pfam-Domain Content for Biosynthetic Gene Cluster Retrieval

The paper compares sequence-derived representations and Pfam-domain content for retrieving biosynthetic gene clusters, finding that Pfam remains the dominant signal.

Microbial bioprospecting for benzoxazolinate-like molecules: unleashing the potential of genome mining

The paper identifies 277 putative biosynthetic gene clusters for benzoxazolinate-like molecules through genome mining and presents a neural network model for detecting rare BGCs.

An Oligomeric Lanthipeptide from Nostoc punctiforme Promotes Host Association During Early Symbiosis with Blasia pusilla

This study identifies a lanthipeptide, nostolanthin, that promotes symbiosis between Nostoc punctiforme and Blasia pusilla through oligomerization.

Genome Mining of the Tumor Microbiome Reveals Biosynthetic Diversity and Potential Tumor-modulating Metabolites

The paper surveys the biosynthetic potential of the human tumor microbiome, identifying novel metabolites and their potential roles in tumor pathology.

metaSMASH: Scalable Biosynthetic Gene Cluster Detection for Large Metagenomic Assemblies

metaSMASH improves BGC detection in large metagenomes by reducing computational cost while maintaining result accuracy.