Winnie W. Y. Lee

The paper examines phylogenomic variations in Salmonella Agona during acute and persistent infections, finding increased genome rearrangements and SNP variation in early carriage.

The paper shows that gene cassettes in an integron, amplified by IS26, confer resistance to amikacin and piperacillin/tazobactam, often leaving meropenem as the last-resort antibiotic.

The paper identifies specific amino acid substitutions in NfsA and NfsB that reduce enzyme activity and cause nitrofurantoin resistance in E. coli, but finds that WGS alone cannot reliably predict resistance due to functional silent mutations and downregulated gene expression.