TABLE 3

Detection of pathogenic bacteria and antimicrobial resistance genes in cultured blood samples

SampleNo. of raw
reads
Total no. of
mapped reads
Bacterium
identified
Genome
coverage (%)
AST profileaSignificant AMR gene(s) detected
12,833,6972,709,612Pseudomonas
aeruginosa
87TET (R), MERO (I)mexA to -N, -P, -Q, -S, -V, and -W
combined with oprM
28,322,2227,126,518Escherichia
coli
81AMP (I), CEF (I)TEMs (115, 4, 80, 6, 153, 143, 79),
combined with numerous efflux
pump antiporters (including most
prominently acrF, cpxR, or H-NS)
35,768,1295,096,360Morganella
morganii
90AMP (R), CEPH (R),
AZT (I)
Numerous DHA complex β-lactamases
(DHA-20, -17, -21, -1, -19), combined
with efflux pump antiporters acrB and smeB;
cpxR, related to aztreonam resistance
45,749,6374,774,301Haemophilus
influenzae
92NAhmrM
  • a Antimicrobial sensitivity test (AST) profile: AMP, ampicillin; AZT, aztreonam; CEF, cefoxitin; CEPH, cefazolin/ceftazidime/ceftriaxone; MERO, meropenem; TET, tetracycline. R, resistant; I, intermediate rating; NA, not applicable.