Genomic analysis of Salmonella Typhimurium from humans and food sources accurately predicts phenotypic multi-drug resistance

•Whole genome sequencing (WGS) can reliably predict AMR in S. Typhimurium isolates.•WGS can reveal genetic determinants to elucidate the evolution of antimicrobial resistance.•The overall specificity of WGS in predicting antimicrobial resistance is 100%.•Multi-drug resistant S. Typhimurium isolates were genetically closer compared to pan-susceptible isolates.