J. M. Dick

Adaptations of microbial genomes to human body chemistry

The paper analyzes microbial genome adaptations to human body chemistry, finding that gut microbiota in patients show reduced chemical states despite inflammation, suggesting evolutionary strategies for obligate anaerobes.

Local and global chemical shaping of bacterial communities by redox potential

The paper examines correlations between redox potential and carbon oxidation state in microbial communities across seven environments, finding positive global correlations in bacterial communities but not archaeal ones.

Genomic evidence for a chemical link between redox conditions and microbial community composition

The paper links microbial community composition to environmental redox conditions using 16S rRNA gene data and predicted proteomes, showing redox gradients in hydrothermal systems and shale gas wells.

A thermodynamic model for water activity and redox potential in evolution and development

This paper develops a thermodynamic model to infer water activity and redox potential from protein data across evolutionary and developmental contexts.

Water as a reactant in the differential expression of proteins in cancer

The paper analyzes protein expression patterns in cancer, finding higher hydration states and varied carbon oxidation states in tumors compared to normal tissues.

Distinct trends in chemical composition of proteins from metagenomes in redox and salinity gradients

The paper analyzes protein composition trends in metagenomes across redox and salinity gradients, finding that salinity affects hydration states while redox gradients are better captured by carbon oxidation state differences.

Chemical composition and the potential for proteomic transformation in cancer, hypoxia, and hyperosmotic stress

The paper analyzes proteomic transformations in cancer, hypoxia, and hyperosmotic stress using chemical composition and thermodynamic potential, finding condition-dependent differences and microenvironmental constraints.