Jonathan R. Iredell

The paper develops a rules-based classifier to predict ciprofloxacin resistance in Klebsiella pneumoniae from genotype data and demonstrates its global distribution association with quinolone consumption.

The paper engineers a probiotic plasmid using exclusion genes from AMR plasmids to block their spread in the gut, showing effectiveness in vitro and in mice.

CCMetagen improves metagenomic classification by using weighted read mappings, outperforming existing tools in precision and F1 scores for species-level identification.

The paper analyzes whole-genome sequences of 16 ExPEC ST73 isolates from a single hospital to identify circulating clonal groups and their mobile genetic elements.