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Fig. 6 | Genome Medicine

Fig. 6

From: Destination shapes antibiotic resistance gene acquisitions, abundance increases, and diversity changes in Dutch travelers

Fig. 6

AMR gene abundance changes and acquisitions are unequal across AMR mechanisms. a AMR mechanism abundance is compared between pre-travel (blue) and post-travel (red) samples. Each point is a sample, and the boxes represent the median and interquartile range. p values (FDR-corrected paired Wilcoxon test) for the comparisons are given near the top of the panel. The top panel shows the difference between the bootstrapped distributions of the post- and pre-travel samples. The lines give the 95% confidence interval for the difference, and the point gives the estimate. AMR classes where the 95% confidence interval does not cross 0 are red. b AMR class abundance is compared between pre-travel (blue) and post-travel (red) samples. Each point is a sample, and the boxes represent the median and interquartile range. p values (FDR-corrected paired Wilcoxon test) for the comparisons are given near the top of the panel. The top panel shows the difference between the bootstrapped distributions of the post- and pre-travel samples. The lines are the 95% confidence interval for the difference, and the point is the estimate. AMR classes where the 95% confidence interval does not cross 0 are red. c AMR gene acquisitions or losses after travel. Each point is an AMR gene, and points are filled in according to their AMR mechanism. The x-axis is the number of individuals that had the gene in the pre-travel time point, but not in the post-travel time point. The y-axis is the number of individuals that had the gene in the post-travel time point, but not in the pre-travel time point. The red-shaded region spans significantly acquired AMR genes, the blue-shaded region spans significantly lost AMR genes, and the gray-shaded region spans genes that were not significantly acquired or lost. The diagonal line is the null of equal losses and gains for an AMR gene. The inset panel shows which AMR mechanisms were significantly acquired during travel by permutation testing. The colored histograms show the expected distribution according to 10,000 permutations, and the black vertical lines show the observed value (points in the red-shaded region of the main plot). The z-score and the FDR-corrected p value for the comparison of observations to their expected distribution are given in the top left of each plot. Source data for all panels is provided in the source data file (Additional file 3)

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