Genomic surveillance of Salmonella enterica serotype Minnesota strains from poultry products imported into South Africa - Revision 2

Raw data, supplemental datasets and intermediate files generated for the manuscript 'Genomic surveillance of Salmonella enterica serotype Minnesota strains from poultry products imported into South Africa' - REVISION 2. Code for the analysis can be found in https://github.com/VishnuRaghuram94/SEPI . Link to publication : https://doi.org/10.1099/mgen.0.001633 ---- Changelog ---- 2.0.2: Alignment information for plasmid CP146619.1 was missing from Dataset_S15 and has now been included 2.0.1: Added another table (S10) - Non-redundant PLSDB AMRFinder results Fix error in table S10 (now table S11) - initially had uploaded the wrong BLAST results from an earlier date, now updated with results from Oct 6th 2025 2.0.0: Increased number of publicly available genomes used from 229 to 465. All relevant tables updated accordingly. Added new table with fastq read mapping against plasmid reference sequences Added new table with results from ISEScan (Insertion element search) BEAST results removed 1.0.0: First release