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Fig. 2 | Journal of Translational Medicine

Fig. 2

From: Enhanced DNA and RNA pathogen detection via metagenomic sequencing in patients with pneumonia

Fig. 2

mNGS assay optimization on host DNA depletion. a The ratio of unique reads mapped to the human genome before and after human DNA depletion (mean with SD). b Relative enrichment of sequencing reads mapped to microorganisms by the host DNA depletion approach. c Pathogen detection in 29 samples without host DNA depletion (below) and after host DNA depletion (upper), shown by species RPM normalized by min–max normalization. d Relative enrichment of pathogen species reads before and after human DNA depletion in positive BALF specimens. Viruses (n = 3) are EBVs; G+ bacteria (n = 11) include S. pneumoniae and Tropheryma whipplei; G− bacteria (n = 7) include Pseudomonas aeruginosa, Klebsiella pneumoniae and Haemophilus influenza; fungi (n = 7) include Aspergillus fumigatus, Candida albicans and Candida tropicalis; and Chlamydia (n = 1) is Chlamydia psittaci. e Comparison of pathogen detection with two host DNA depletion methods. Three different BALF specimens spiked with HSV1, VZV, EBV, S. pneumoniae and Aspergillus Niger were undergo host DNA depletion with the saponin method and the MolYsis kit. After sequencing with 15 M for each library, species reads were calculated respectively

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