Abubaker KawooyaEilu EmmanuelJesca NakavumaSunil KumarHussein Mukasa KafeeroDdembe Bashir MwambiRasheed Omotayo AdeyemoIsmail Abiola AdebayoSaheed Adekunle Akinola2025-02-242025-02-242024-03https://dir.ciu.ac.ug/handle/123456789/1512Department of Microbiology and Immunology, Kampala International University-Western Campus, Bushenyi, Uganda b College of Veterinary Medicine, Animal Resources and Biosecurity, Makerere University, P. O. Box 7062, Kampala, Uganda c Department of Microbiology Graphic Era Deemed to be University, Clement Town, Dehradun, Uttarakhand, India d Department of Medical Microbiology, Faculty of Health Sciences, Habib Medical School, Islamic University in Uganda, P.O BOX 2555, Mbale, Uganda e Institute of Allied Health Sciences, Clarke International University, Kampala, Uganda f Department of Microbiology and Parasitology, School of Medicine and Pharmacy, College of Medicine and Health Sciences, University of Rwanda, Butare, Rwanda g Department of Medical Biochemistry, Molecular Biology, and Genetics, School of Medicine and Pharmacy, College of Medicine and Health Sciences, University of Rwanda, Butare, RwandaThis article presents a dataset on bacterial community structure associated with Ready-to-eat (RTE) vegetable salads sold in Kampala City, Uganda. The Illumina Miseq sequencing of 16S rRNA gene amplicon unveiled the bacterial communities and generated a metagenomic library from RTE vegetable salads to understand the diversities and distribution. The metagenome contained a total of 23,805 sequences with 35,420 Taxonomic units (OTUs). Metagenome sequence information is obtainable at NCBI under the Bioproject assigned accession number PRJNA1064313. Taxonomic hits distribution from VSEARCH analysis at phylum level classification of NN-3 discovered predominantly Proteobacteria (65.34%) followed by Firmicutes (31.60%) and Bacteroidota (0.14%). Deinococcota (0.01%) and Planctomycetota (0.01%) were also detected. Also, VSEARCH-assisted analysis of NN-4 detected a higher prevalence of Firmicutes (65.68%) than Proteobacteria (33.25%), while Bacteroidota (0.04%) indicating the presence of contaminants of faecal sources.en16S rRNA geneIllumina MiSeq systemMicrobial communityOperational taxonomic units