AOAC SPADA Meeting

3/11/2020

NARMS in the age of genomics

• Old way: Emerging resistance phenotype (time scale=years) – PCR for known genes – Sanger sequencing • New way: single sequenced isolate can be signal – Have context for finding based on previous results – Can use data in public domain

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NARMS Sequencing Strategy

• All Salmonella • All Campylobacter • All E. coli • Select Enterococcus • Do repeat testing when mismatches occur FDA ‐ CVM USDA ‐ FSIS CDC* Salmonella 6,668 6,629 113,680 Campylobacter 2,935 8,360 13,377 E. coli 2,356 2,724 35,882 *not all these genomes are from NARMS sampling

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