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Fig. 3 | Genome Medicine

Fig. 3

From: Metagenomic prediction of antimicrobial resistance in critically ill patients with lower respiratory tract infections

Fig. 3

A FLASH (Finding Low Abundance Sequences by Hybridization) CRISPR/Cas9 targeted Illumina sequencing enriched the detection of culture-confirmed bacterial LRTI pathogen AMR alleles by 46 × to > 2500 × versus DNA-seq alone. B Workflow diagram for FLASH targeted enrichment coupled with nanopore sequencing. Time estimates provided for a single sample. C Real-time detection of AMR genes by FLASH targeted nanopore sequencing was achieved within 10 min following mNGS library preparation. Data from two representative Staphylococcus aureus LRTI cases are highlighted. Case 212 (left panel) highlights a case where detection of BlaZ and MsrA/ErmA genes correlated with phenotypically determined penicillin and macrolide/lincosamide resistance, respectively. Case 288 (right panel) highlights a case where detection of MecA, BlaZ, and MsrA correlated with phenotypically confirmed methicillin, penicillin, and macrolide resistance, respectively

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Genome Medicine

ISSN: 1756-994X

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