Fig. 3
Heat map displaying antimicrobial resistance susceptibility patterns of presumptive ESBL/AmpC-producing E. coli recovered on selective media (MC+) according to sample day (D10 and D21) and type (boot swab and faeces). Selected presumptive ESBL/AmpC-producing E. coli isolates were tested for β-lactamase-encoding genes using the multiplex PCR method. Multiplex I targeted TEM, SHV and OXA-1-like β-lactamases, multiplex II targeted CTX-M group 1, 2, 9 and 8/25 β-lactamases, multiplex III targeted plasmid mediated AmpC β-lactamases and multiplex IV targeted VEB, PER and GES β-lactamases. Six of the E. coli isolates with a PCR product amplification were subsequently sent for Sanger sequencing to fully identify the specific β-lactamase gene targeted: blaTEM-1 was detected in all multiplex I positive samples; blaCMY-2 in all multiplex III positive samples. Each column represents the data of a single isolate