Prediction of Genetic Relatedness of Escherichia coli Using Long-Read Sequencing Paired with Neighbour Typing: A Tool for Rapid Antibiotic-Resistant Organism Outbreak Detection - Updated E. coli database

The enhanced E. coli database used for the initial analyses in this publication and the iterative databases used for the intermediate steps in the long outbreak analysis. The enhanced database consists of the initial isolates included in the previously published E. coli database (DOI: 10.5281/zenodo.11042579) with additional isolates added for missing and under-represented STs (ecoli_enhanced_mlst_db.zip). Additional MLST isolates were downloaded from NCBI. The iterative databases for the long outbreak have also been included (ecoli_extout_dbs.zip), with outbreak isolates added to the above enhanced database. Files from the databases (.k18.tar.gz and .k18.tsv) and original metadata (.tsv) and genetic trees (.tree) have been included for each database.