Trevor D. Lawley

MxSure estimates within-host substitution rates and transmission SNP thresholds from pairwise SNP distances, addressing challenges in microbial genome evolution analysis.

The paper identifies a novel subspecies of Bifidobacterium longum, BL. nexti, in infant gut microbiomes, showing its association with formula feeding and vertical transmission.

This study shows that the human whipworm's host specificity is driven by the host microbiome, using a humanized-microbiota mouse model and metagenomic analysis.

The paper identifies Clostridium species that metabolize human milk oligosaccharides, producing beneficial metabolites and suppressing inflammation and pathogen growth in preterm infants.

TRACS improves transmission inference by accurately estimating SNP-level genetic distances, outperforming existing methods in multiple datasets and revealing species-specific transmission rates between mothers and infants.

The paper demonstrates broad host range mobile genetic elements transferring antibiotic resistance from human gut commensals to enteropathogens.

The paper analyzes the pangenome of Campylobacter hyointestinalis subspecies to reveal genetic isolation and host adaptation differences.

CarboLogR is a Shiny/R tool that automates statistical analysis of bacterial carbon source utilization from Biolog assays, using chemoinformatics to cluster carbon sources.