Extended Data Fig. 8: Population dynamics of community invasion experiments of AMR E.
From: Strain displacement in microbiomes via ecological competition
coli strains in Fig. 4b-c Community invasion experiments using scheme in Fig. 4a. The endpoint abundances of resident strains (blue) and invader strains (red) for each competition are plotted in Fig. 4b-c. Lines connect medians, dotted lines indicate detection limits from selective plating. N=4-6 biological replicates from independent experiments for each competition. For each AMR E. coli isolate, the identified best invader (from Fig. 3b) is tested for its ability to displace the AMR E. coli resident when it does (indicated with “+E2” in the panel) or does not produce colicin E2, in the presence or absence of a 15-species community. A-D) invasions when E. coli 0018 is the resident and E. coli IAI1 is the invader. E-H) invasions when E. coli 0960 is the resident and E. coli Z1269 is the invader. I-L) invasions when E. coli 0268 is the resident and E. coli Z1269 is the invader. A-B, E-F, I-J) Two focal E. coli strains compete in the absence of a diverse community. C-D, G-H, K-L) Competitions between focal E. coli are embedded within a diverse community of 15 species (see Table S1 for strains).
