number;file name;brief description;description in detail;file format;software used ;data relationship
0;00_Pfeifer_Cephalosporin_resistence_persists_in_pigs;Table of Contents;Table of Contents;csv;NA;NA
1;01_Pfeifer_TabS1_Farm_management_data;Farm management data for farms O1, O2, C1 and C2;Annotation 1: To our knowledge, the antibiotics were used according to the prescription recommendation both in terms of duration and dosage of the application. ;csv;NA;NA
2;02_Pfeifer_FigS1_Heatmap_structure;Structure of the heatmaps representing the succession of the pig age groups in the individual fattening runs in the four different farms and indicating the samples taken;"FR = fattening run; s.p. = suckling piglet; fat. = fattening; suckling piglet 1 = suckling piglets from FR 1; weaners 2+3 = weaners from FR 2 and 3 were grouped together prior to sampling; mid fattening 4 / early fattening 5 = early fattening pigs from FR 5 were added to mid fattening pigs from FR 4; a / b / c = suckling piglet sampling of a FR is composed of multiple samples taken from different pens; ""sorted out"" stands for the sample of those piglets that were sorted out during farrowing and added to the piglets of the following litter period on the flatdeck. From weaning on, piglets from FR 2 and FR 3 (weaners 2+3) are thus housed together; \ =  fecal sample was not taken.";tiff;NA;NA
3;03_Pfeifer_FigS2_Fraction_resistant_bacteria_per_age;Fraction of cephalosporin- / fluoroquinolone-resistant gamma-proteobacteria in all gamma-proteobacteria per age group. ;"Representation of all percentage values determined for the resistant bacteria on the selective plates as box-and-whisker plots; due to the exclusive sampling of suckling piglets on farm C1, more values were available for this age group. The data points are slightly scattered horizontally for better visibility; antennas enclose all values within 1.5 times the interquartile range. In order to be able to logarithmically represent the pooled fecal samples without growth (measured value 0), the value 0.001 was added to all percentage values of resistant colony forming units. Values above 100% were truncated at 100% (n = 3).";tiff;NA;NA
4;04_Pfeifer_TabS2_Cfu_all_farms;Absolute numbers of colony forming units per sample;"CFU for each sample and cultivation method (GA = Gassner agar, GE = GA supplemented with 4 mg/ml enrofloxacin; GF = GA supplemented with 4 mg/ml ceftiofur; GQ = GA supplemented with 8 mg/ml cefquinome); The question marks for the fattening runs (lines 47 - 72) in farm C1 indicate that these are the successive suckling piglet groups present in the respective pens #1 - #5; FR = fattening run.";csv;NA;NA
5;05_Pfeifer_TabS3_Stats_Figure2_Wilcoxon.csv;Results of Wilcoxon-Mann-Whitney-Test comparing the relative number of bacteria between farms;Applying wilcox.test() function in R to compare the relative number of bacteria between farms;csv;R;Figure_2
6;06_Pfeifer_FigS3_Percentage_resistent-bacteria_Farms_O2_and_C1;Percentage values of resistant bacteria on GE, GF and GQ plates of all fecal samples from farms O2 (A) and C1 (B) compared between selective plate types.;"For the structure of the heatmaps and the abbreviations used, see Fig. S1; GE = Gassner agar supplemented with 4 mg/ml enrofloxacin; GF = Gassner agar supplemented with 4 mg/ml ceftiofur; GQ = Gassner agar supplemented with 8 mg/ml cefquinome.";tiff;NA;NA
7;07_Pfeifer_FigS4_MLVA_PCR_gel;MLVA-multiplex gel image (top) and MLVA-duplex gel image (bottom).;"In both gels, PCR amplicons of the same strains are plotted from left to right. Green = banding patterns comprised of seven bands match (two examples); red = banding pattern comprised of seven bands does not match; M = 100 bp marker.";tiff;NA;NA
8;08_Pfeifer_FigS5_Antibiotic_usage;Usage of 3rd/4th generation cephalosporins and fluoroquinolones on farms O1 (A) and C2 (B) during the sampling period.;"For a detailed structure of the heatmaps, see Figure S1. 6/41 = Six animals of all 41 animals, the sampled animal group encompassed at the time of sampling, were treated with the antibiotic; x/309 = an unknown number of animals of all 309 animals, the sampled animal group encompassed at the time of sampling, were treated with the antibiotic (farm management was not able to tell us how many animals they treated). FR = fattening run.";tiff;NA;NA
9;09_Pfeifer_TabS4_Stats_Figure2_Confidence.csv;Median and confidence intervals of the quotient values per selective plate and farm;Confidence intervals computed in R DescTools Function MedianCI;csv;R;Figure_2