Antibiotic perseverance increases the risk of resistance development

Experimental data description All experiments performed are timelapse microscopy experiments. Each experiment contains two directories, one containing phase contrast images arranged by positions on the microfluidic device, and the other contains the analysis scripts. The 'Overview.csv' file contains a full description for the conditions in each experiment. Experiments can be divided into 3 categories: 1. 4h exposure to various antibiotics (E. coli) These are the main experiments within the paper where cells are exposed to various antibiotics at 1/8x, 1/4x, 1/2x and 1x MIC.   a) EXP-21-BW5663_LB-1.zipOpens in a new tab (LB replicate 1) b) EXP-22-BY2422_LB-2.zipOpens in a new tab (LB replicate 2) c) EXP-21-BW5667_CAR-1.zipOpens in a new tab (CAR replicate 1) d) EXP-22-BY1020_CAR-2.zipOpens in a new tab (CAR replicate 2) e) EXP-21-BT2897_CRO-1.zipOpens in a new tab (CRO replicate 1) f) EXP-22-BY2425_CRO-2.zipOpens in a new tab (CRO replicate 2) g) EXP-21-BY1007_CHL-1.zipOpens in a new tab (CHL replicate 1) h) EXP-22-BY1043_CHL-2.zipOpens in a new tab (CHL replicate 2) i) EXP-21-BT2896_CIP-1.zipOpens in a new tab (CIP replicate 1) j) EXP-22-BY2424_CIP-2.zipOpens in a new tab (CIP replicate 2) k) EXP-21-BW5664_GEN-1.zipOpens in a new tab (GEN replicate 1) l) EXP-22-BY1022_GEN-2.zipOpens in a new tab (GEN replicate 2) m) EXP-21-BW5666_NIT-1.zipOpens in a new tab (NIT replicate 1) n) EXP-22-BY2419_NIT-2.zipOpens in a new tab (NIT replicate 2) o) EXP-21-BT2898_RIF-1.zipOpens in a new tab (RIF replicate 1) p) EXP-21-BY1000_RIF-2.zipOpens in a new tab (RIF replicate 2) q) EXP-21-BW5661_SPT-1.zipOpens in a new tab (SPT replicate 1) r) EXP-21-BY1019_SPT-2.zipOpens in a new tab (SPT replicate 2) s) EXP-21-BW5658_TET-1.zipOpens in a new tab (TET replicate 1) t) EXP-22-BY2421_TET-1.zipOpens in a new tab (TET replicate 2) 2. 17h exposure to rifampicin (E. coli, S. enterica) These experiments were performed to test the effect of long-term rifampicin exposure on Escherichia coli and Salmonella enterica. a) EXP-21-BT2899.zipOpens in a new tab (E. coli) b) EXP-21-BY1015.zipOpens in a new tab (S. enterica) 3. Growth in minimal medium (E. coli) This experiment was performed to test how reducing the cellular growth rate (without antibiotics) affects the cell-to-cell growth heterogeneity. a) EXP-22-BY2420.zipOpens in a new tab Code The 'codefolder' contains the ImAnalysis pipeline and the UNet used for image analysis. The scripts and parameter files to perform the image analysis are provided within each individual experiment folder.  The 'Data_analysis' folder contains three directories: (i) 'Analysis_scripts', which contains the R scripts used for data analysis and figure generation; (ii) 'Raw_data', which contains the raw data underlying the figures in the paper; and (iii) 'Results', which is the output directory for the figures generated by the analysis scripts.