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Subtyping, the ability to differentiate and characterize closely related microorganisms, has historically been a critical component of successful outbreak identification and traceback efforts employed by public health researchers and regulatory agencies for foodborne pathogens. Serological subtyping (or serotyping) has been the standard approach, largely based on antibody binding to surface antigens (Henriksen, 1978). The identification of specific antigenic factors has facilitated the creation of serotyping schemes, which define each serovar using a specific (generally unique) combination of antigenic factors. Serotyping schemes have been developed to assist in characterization of many microorganisms, including pathogens such as Salmonella, E. coli, Shigella (Strockbine, Bopp, Fields, Kaper, & Nataro, 2015), Streptococcus (Spellerberg & Brandt, 2015), and H. influenzae (Ledeboer & Doern, 2015).

SeroTools: a Python package for Salmonella serotype data analysis