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Food-borne salmonellosis is the most prevalent disease and major source of Salmonella spp in humans and its detection particularly in developing countries is quite cumbersome and time consuming. Molecular methods for its detection as well as the genotypic diversity of some of the genes responsible for Salmonella virulence are necessary. The aim of the study was to screen for Salmonella spp using the 16S rRNA, to determine whether the invA gene is specific for Salmonella detection as well as virulence genotyping of some genes present in Salmonella spp (invA, sitC and spvA, spvB and spvC) from food samples in Lagos, Nigeria. All 76 isolates tested positive for 16S rRNA gene while 53 (69.7%) were positive for salm3 and salm4 (389 bp) gene. PCR analysis of the invA gene (284bp) showed that 73 (96.1%) were positive, 38 (50%) of the isolates were positive for sitC gene while none were positive for spvA and spvB and with the multiplex –PCR of invA/spvC gene 25 (33%) were positive for invA (244 bp) gene and none positive for spvC gene. The use of invA gene for Salmonella detection in our food samples is recommended however for most of our isolates the virulence genes were not detected.