Briefly, we subcultured strain JLM281 at a dilution of 1:100 from an overnight culture in DMEM into a 96 well plate containing minimal medium, 150 μl per well, on a Bioshake iQ thermal mixer (Quantifoil Instruments GmbH, Jena, Germany) at 37°C with mixing at 1200 rpm. We used DMEM for these expression experiments because induction of recA, LEE4, and LEE5 were higher in DMEM than in LB broth. The 96 well

plate was sealed with gas-permeable plate sealing film to prevent evaporation during the growth phase. At 4 h when the cultures reached an OD600 in the 0.2 to 0.3 range, 20 μl of bacterial culture was transferred to the wells of a a second 96 well plate containing 80 μl of permeabilization buffer and allowed to permeabilize for at least 10 min at room temperature. The β-galactosidase learn more AZD2014 ic50 reaction was initiated by transferring 25 μl of permeabilized bacteria into a third 96 well

plate containing 150 μl of substrate solution with 1 g/L o-nitrophenyl-β-galactoside (ONPG). The enzyme reaction plate was incubated at 30°C for 30 min, and ARRY-438162 clinical trial then A420 was measured on the 96 well plate reader. We usually omitted the addition of the Na2CO3 stop solution. Miller units were calculated using the simplified equation: Agar overlay assay for bacteriophage plaques by modified spot assay We used wild-type STEC strains as the source of bacteriophage for these experiments. STEC bacteria were subcultured at a dilution of 1:100 into antibiotic-free DMEM medium from an overnight culture. After 1 h of growth at 37°C with 300 rpm shaking, additions such as ciprofloxacin or zinc were made and the tubes returned

to the shaker incubator for 5 h total. The STEC suspension was clarified by centrifugation, then subjected to sterile filtration using syringe-tip filters. The STEC filtrate was diluted 1:10 in DMEM medium, then serial 2-fold dilutions were made to yield dilutions of 1:20, 1: 40, 1: 80 and so on. The recipient strain, E. coli MG1655, was subcultured at 1: 50 from overnight and grown in LB broth for 3 hours. Soft LB agar was prepared using LB broth supplemented with 0.5% agar and 0.5 mM MgSO4. The soft agar was melted by microwave heating, and kept warm at 45°C on a heater block. The MG1655 culture was O-methylated flavonoid diluted 1: 10 into the soft agar and 5 ml of the bacteria-containing agar was overlaid on top of the agar of regular LB agar plate and allowed to solidify. Then 3 μl aliquots of the diluted STEC filtrates were spotted on top of the agar overlay. Plaques were visualized after 16 h of additional incubation at 37°C. Any faint zone of clearing was counted as a plaque. The highest dilution of STEC filtrate that produced a plaque was recorded as the plaque titer. Rabbit infection experiments No new rabbit infection experiments were performed for this study. We used photographs from the archives of our previous animal experiments to create the illustration in final figure.