D. K. Newman

This paper predicts microbial dioxygen utilization from genome sequences without gene annotation, achieving >70% accuracy and demonstrating environmental correlations.

This paper identifies a generalizable mechanism for biological oxidation of phenazine-1-carboxylic acid (PCA) by studying the electron transport chain in Citrobacter portucalensis MBL.

This study reports 33 new metagenome-assembled genomes of DPANN archaea from marine oxygen deficient zones, revealing their abundance, distribution, and potential roles in biogeochemical cycles.

The paper identifies flavohemoglobin as a detoxifying NO reductase that imparts a distinct isotopic fingerprint on N2O under anoxia, suggesting a new framework for attributing N2O sources.

The paper detects intracellular Pseudomonas aeruginosa in CF lung tissues using microscopy and culture, showing its presence in 3 out of 7 analyzed lungs.

The paper shows electrochemical disruption of pyocyanin redox cycling in Pseudomonas aeruginosa biofilms reduces cell survival and synergizes with antibiotics like gentamicin.

The paper shows that bacterial secretions, particularly redox-active molecules, can interfere with optical O2 sensors, complicating O2 measurements in bacterial cultures and biofilms.

This study shows that hopanoids in Bradyrhizobium diazoefficiens provide robustness to environmental variability in soil, explaining discrepancies between in vitro and in planta results.

This paper uses HCR to visualize gene expression in Pseudomonas aeruginosa aggregates, revealing spatial patterns of fermentative and denitrifying metabolism across oxygen gradients.

This study shows that polyphosphate reduces cytoplasmic mobility and chromosomal accessibility in nitrogen-starved Pseudomonas aeruginosa, potentially explaining its pleiotropic effects.

The paper shows that oxygen levels determine whether nitric oxide cross-feeding is harmful or beneficial in microbial communities.

The paper investigates how redox-active secondary metabolites like pyocyanin and toxoflavin modulate antibiotic resilience across bacterial species, showing they can antagonize or potentiate antibiotic effects.

The paper assesses phenazine resistance in bacteria from a wheat field, finding Gram-positive bacteria are more sensitive to phenazines and resistance correlates with rhizosphere presence and pH.

The paper identifies Paraburkholderia edwinii as a bacterium that protects Aspergillus sp. from phenazines by sequestering them, and shows this interaction is mediated by HrcA and environmental conditions.

This study uses spatial transcriptomics to analyze microbial populations, revealing spatially resolved metabolic and virulence states in Pseudomonas aeruginosa.

The paper uses metagenomics to study phenazine biosynthesis and biodegradation in soils and crop microbiomes, revealing species-specific associations and ecological roles.

This study shows that bacterial production of natural antibiotics like pyocyanin increases tolerance to clinical antibiotics and accelerates resistance mutation rates in multispecies infections.

This study shows extracellular DNA enhances electron transfer efficiency in Pseudomonas aeruginosa biofilms by facilitating phenazine retention and redox reactions.

This paper uses HCR v3.0 to visualize and quantify gene expression in Pseudomonas aeruginosa biofilms, revealing hypoxic zone-specific alginate gene expression.

This study shows that nontuberculous mycobacteria aggregate in response to carbon:nitrogen balance, not their mycolic acid-rich cell wall.

This study shows that loss of extended hopanoids in Bradyrhizobium reduces bacterial motility and surface attachment, leading to heterogeneous root nodule development in Aeschynomene afraspera.

This study refines the use of microbial lipids as growth rate tracers for Staphylococcus aureus in CF sputum by identifying alternative microbial sources of fatty acids and recommending best practices for stable isotope probing.

This paper develops a D2O-labeling lipidomics approach to measure microbial growth rates in infections, finding that deuterium incorporation in lipids can estimate generation times of pathogens like S. aureus.