Salmonella‐contaminated raw food is an important source of human food poisoning. Traditional methods for detecting Salmonella in meat involve many time‐consuming and laborious steps, preventing timely and effective control of the pathogen. In this study, a multiplex polymerase chain reaction (PCR) assay that targets serovar‐specific genes such as A7P63_0910 (Salmonella Indiana), sdfI (Salmonella Enteritidis), and STM4497 (Salmonella Typhimurium) for three meat‐associated Salmonella serovars was established. This multiplex PCR has been validated by extensive testing on reference strains and clinical isolates belonging to different Salmonella serovars (n = 348) and non‐Salmonella bacteria (n = 12). The detection limit is 100 CFU per reaction for bacterial culture, being equivalent to 10 pg per reaction for bacterial genomic DNA. Detection of Salmonella in raw meat samples by this multiplex PCR revealed that the prevalence of S. Indiana, S. Enteritidis, and S. Typhimurium is 7.7%, 5.7%, and 2.0%, respectively. The multiplex PCR established in this study can be used as a novel and convenient tool for simultaneous detection of three major meat‐associated Salmonella serovars, including the newly emerging and highly drug‐resistant S. Indiana. Practical applications In this study, a multiplex polymerase chain reaction (PCR) assay that targets serovar‐specific genes such as A7P63_0910 (Salmonella Indiana), sdfI (Salmonella Enteritidis), and STM4497 (Salmonella Typhimurium) for three meat‐associated Salmonella serovars was established. This multiplex PCR is suitable for the simultaneous detection and differentiation of three major meat‐associated Salmonella serovars, and has been validated by extensive testing of reference strains and clinical isolates. The multiplex PCR assay can provide rapid and specific screening for top three Salmonella serovars in meat samples.

Salmonella enterica serovar Indiana (S. Indiana) is a newly emerging pathogen with high levels of drug resistance. It has become one of the most common Salmonella serovars in China with a worldwide distribution, posing significant public health concerns. Detection of S. Indiana by traditional bacteriological methods is time-consuming and laborious, which prevents timely surveillance and effective control of the pathogen. In this study, comparative genomics was used to identify an A7P63_13850 gene that is uniquely present in S. Indiana, but not in other Salmonella serovars or any non-Salmonella bacteria. Then, a polymerase chain reaction (PCR) assay targeting this serovar-specific gene was established for specific detection of S. Indiana. The detection limit of this method is 10 pg per reaction for bacterial genomic DNA, being equivalent to 100 colony-forming units (CFU) per reaction. The established PCR amplifies all S. Indiana strains (n = 56), but none of other Salmonella serovars (n = 146) and non-Salmonella species (n = 14). The assay established in this study was also used to detect clinical samples from poultry, showed a positivity of 14.7% (23/156) for S. Indiana, which were verified by bacteriological methods. The highly sensitive and serovar-specific PCR for S. Indiana established in this study is suitable and convenient for detection of S. Indiana which aids in surveillance and control of the pathogen.