P. Bork

Uncovering nitroxoline activity spectrum, mode of action and resistance across Gram-negative bacteria

This study identifies nitroxoline's broad antibacterial activity against Gram-negative bacteria, its mode of action involving metal homeostasis and outer membrane disruption, and resistance mechanisms across multiple species.

Emergent survival and extinction of species within gut bacterial communities

The paper shows how species in gut bacterial communities can survive or go extinct based on resource availability and metabolic interactions, identifying emergent survival and community-driven extinctions.

Fecal microbial load is a major determinant of gut microbiome variation and a confounder for disease associations

This study shows that fecal microbial load, not disease, is the main driver of gut microbiome changes and identifies it as a major confounder in microbiome studies.

Computational exploration of the global microbiome for antibiotic discovery

The paper uses machine learning to predict antimicrobial peptides from microbiome data, identifies novel peptides, and validates their antibacterial activity against drug-resistant pathogens.

Emergence of community behaviors in the gut microbiota upon drug treatment

This study examines how drug treatment affects gut microbiota communities, finding that cross-protection is more common than cross-sensitization, and that metabolic processes contribute to these community behaviors.

Consistency across multi-omics layers in a drug-perturbed gut microbial community

The paper examines consistency and complementarity across five omics layers in a drug-perturbed gut microbial community, finding high agreement in species abundance and functional insights from different data types.

Global observation of plankton communities from space

The paper uses satellite data and machine learning to predict global plankton community distributions with 67% accuracy, outperforming temperature and chlorophyll a alone.

C. difficile may be overdiagnosed in adults and is a prevalent commensal in infants

This study finds that C. difficile is often overdiagnosed in adults and is a common commensal in infants, with distinct microbial associations across age groups.

Functional and evolutionary significance of unknown genes from uncultivated taxa

The paper identifies and analyzes novel protein families from uncultivated microbes, revealing their evolutionary significance and potential ecological roles.

Visualizing translation dynamics at atomic detail inside a bacterial cell

This study uses cryo-electron tomography to visualize translation dynamics in Mycoplasma pneumoniae, revealing ribosome states and showing how antibiotics affect translation.

Drivers and Determinants of Strain Dynamics Following Faecal Microbiota Transplantation

This study identifies recipient and donor microbiome factors that determine strain dynamics after FMT, independent of clinical outcomes.

Uncharted biosynthetic potential of the ocean microbiome

This study identifies over 40,000 putative biosynthetic gene clusters in ocean microbes, revealing novel biosynthetic potential and a new candidate genus with diverse metabolic capabilities.

Ocean-wide comparisons of mesopelagic planktonic community structures

This study compares mesopelagic planktonic community structures across different oxygen conditions and identifies environmental drivers and community modules.

Genomic evidence for global ocean plankton biogeography shaped by large-scale current systems

The paper analyzes plankton genomic distribution across oceans to show how large-scale currents shape biogeography, revealing size-dependent patterns and basin-scale transport effects.

Polarization of microbial communities between competitive and cooperative metabolism

The paper analyzes microbial community composition across habitats, revealing two distinct types characterized by competition or cooperation, and links cooperation to gut colonization by probiotics.

Dissecting the collateral damage of antibiotics on gut microbes

This study characterizes the antibiotic activity spectrum on gut bacteria, revealing species-specific effects and identifying antidotes to mitigate collateral damage.

Metabolic Architecture of the Deep Ocean Microbiome

The paper analyzes deep ocean microbial metagenomes to reveal functional diversity and metabolic strategies in the dark ocean.

Extensive Transmission of Microbes along the Gastrointestinal Tract

The paper shows oral microbes commonly colonize the large intestine in healthy individuals and more so in disease states like colorectal cancer and rheumatoid arthritis.