biostudies-literatureUnknown13(1)Hounmanou YMGMakerere University Research and Innovations FundMultidrug-resistant ESBL-producing Escherichia coli are a leading cause of infections in hospital and community settings. Based on samples from two hospitals in Uganda and households of inpatients we tested the hypothesis that ESBL E. coli and/or their resistance determinants could spread within the healthcare and community settings through discharged patients that were still colonized. We used bacterial culture, susceptibility testing whole genome sequencing and detailed bioinformatics analysis to test the above hypothesis. Genome analysis revealed presence of predominantly bla_CTX-M-15 and bla_OXA-1 genes with a total resistome with genes belonging to 14 different classes of antimicrobials. Short-term cases of strain sharing were reported within each setting and straiScientific reports10229https://www.ebi.ac.uk/biostudies/studies/S-EPMC10290109biostudies-literatureWhole strains vs MGEs in short and longterm transmission of ESBL genes between healthcare and community settings in Uganda.PMC10290109Olsen JEHounmanou YMGByarugaba DKWanyana AAlafi SWabwire-Mangen FChristensen HfalseWhole strains vs MGEs in short and longterm transmission of ESBL genes between healthcare and community settings in Uganda.Multidrug-resistant ESBL-producing Escherichia coli are a leading cause of infections in hospital and community settings. Based on samples from two hospitals in Uganda and households of inpatients we tested the hypothesis that ESBL E. coli and/or their resistance determinants could spread within the healthcare and community settings through discharged patients that were still colonized. We used bacterial culture, susceptibility testing whole genome sequencing and detailed bioinformatics analysis to test the above hypothesis. Genome analysis revealed presence of predominantly bla_CTX-M-15 and bla_OXA-1 genes with a total resistome with genes belonging to 14 different classes of antimicrobials. Short-term cases of strain sharing were reported within each setting and strai2023-01-01T00:00:00Z2023 Jun2025-07-12T03:06:18.621Z2025-02-19T04:29:11.306ZS-EPMC102901093735351510.1038/s41598-023-35879-x