Matadata of ESBL antimicrobial resistant E. coli from dairy farm soil isolates from South Canterbury New Zealand

The genetic basis of this resistance, including the potential for intra and interspecies transmission. Twenty dairy farm soil Escherichia. coli isolates resistant to a second-generation cephalosporin of less or equal to ten millimetre inhibition zone to cefoxitin thirty microgram were selected for whole-genome sequencing. Sequence analysis: Sequences were quality checked and evaluated using Nullarbor. The genomes were assembled using SPAdes within BioNumerics 7.6 (Applied Maths, Sint-Martens-Latem, Belgium). A range of phenotypes was predicted both within BioNumerics and through Nullarbor (Nullarbor Github: https://github.com/tseemann/nullarbor). Whole-genome Multi-Locus Sequence Typing (wgMLST) was performed in BioNumerics. The BioNumerics of E. coli wgMLST scheme indexes sequence differed for up to 17,380 genes.