Distribution of the diversity numbers of antibiotic resistance and virulence factor protein families by environmental metagenomes’ protein family richness.

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Distribution of the diversity numbers of antibiotic resistance and virulence factor protein families by environmental metagenomes’ protein family richness. Distribution of the diversity numbers of antibiotic resistance and virulence factor protein families by environmental metagenomes’ protein family richness. The vertical axes represent the total diversity count of AR protein families’ homologues (ARd) (A) and VF protein families’ homologues (VFd) (B) present in metagenomes. The horizontal axes represent the protein family richness of the metagenome: that is, the number of cluster representative sequences (see Materials and Methods). Each dot represents one of the 64 metagenomes. In each panel, the black lines represent the regressions of the ARd (A) or VFd (B) of all the metagenomes on the metagenome richness. The points are scattered, showing that the diversity of AR gene families and even more the diversity of the VF gene families can vary greatly from metagenome to metagenome. The light blue lines represent the linear regressions of the ARd or VFd of the human feces metagenomes subset on metagenome richness. Both panels A and B are drawn on the same scale to allow comparison between the two. (A) Black line (all), slope = 0.004762, R2 = 0.7213, and P < 2.2e−16; blue line (human), slope = 0.0037169, R2 = 0.9004, and P = 2.516e−06. (B) Black line (all), slope = 0.0083366, R2 = 0.6241, P = 5.194e−15; blue line (human), slope = 0.0035407, R2 = 0.7791, and P = 0.0001432. Pedro Escudeiro et al. mSphere 2019; doi:10.1128/mSphere.00135-19