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. 2022 Apr 13;88(9):e02517-21. doi: 10.1128/aem.02517-21

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FIG 5 — Enterobacteriaceae and Clostridiales were the bacterial hosts of AMR in broiler chicks. AMR gene hosts found by Hi-C contacts. AMR genes (horizontal axis of heat map) associated with metagenome-assembled genomes (MAGs) present in cecal samples from chicks on fresh litter (Hi-C-FL1 and Hi-C-FL2) and reused litter (Hi-C-RL1 and Hi-C-RL2). MAGs and AMR gene sources were derived from Hi-C-based deconvolution of the metagenome assembly and placed into a bacterial phylogeny using Mash and CheckM by the ProxiMeta platform. The MAG assigned to family Enterobacteriaceae in each sample matches most closely to an Escherichia coli genome. Legend: gold, AMR genes that are associated with plasmid sequences on the same contigs; cyan, AMR genes that are likely to be genomically integrated; black, no contact above statistical thresholds.