Cultivation-independent recovery of genomes from high-quality metagenomes assigns AMR genes to bacterial species
lower respiratory tract infection
LOWER RESPIRATORY TRACT INFECTION, LRTI
We were further interested in better understanding our observations and assigning them to bacterial species. Recent advances in sequencing throughput and computational techniques allow metagenome-assembled genomes (MAGs) to be recovered from high-diversity environments [Phylogenetic tree of cultivation-independently recovered MAGs. Two hundred three recovered high-quality MAGs from shotgun sequences that were characterized and placed in a phylogenetic tree. The outer rings provide information on taxonomy, LRTI-related metadata, and AMR genes. From inside out: the first circle color codes 10 different MAGs phylum; the 2–4 circles present an average abundance of different MAGs in a certain group at a certain time point, i.e., brown: controls at 4 and 6 months (combined), red: LRTI cases at 4 and 6 months, green: controls at 12 months, and blue: LRTI cases at 12 months. In the top layer of the figure, the black bars present the number of AMRs found in certain MAG. MAGs, metagenome-assembled genomes; AMR, antimicrobial resistance genes; LRTI, lower respiratory tract infection