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Table 3 Clusters, Clinical Microbiology, and OTU analysis of the adult ICU patient blood samples

From: Bacterial DNA patterns identified using paired-end Illumina sequencing of 16S rRNA genes from whole blood samples of septic patients in the emergency room and intensive care unit

Sample Blood Culture Other Culturea “noRoot” OTU % Top OTU(s)b RepresentativeSequenceIDc
Group 1d-A
 ASN455 Group G Streptococcus Group G Streptococcus 98.8 175 Streptococcus dysgalactiae/agalactiae
 ASN350 Negative Negative 97.2 5 Streptococcus pneumoniae/oralis/mitis
 ASN349 Negative Streptococcus intermedius 99.4 5 Streptococcus pneumoniae/oralis/mitis
 ASN452 Negative Not Done 98.9 8 Streptococcus intermedius/anginosus
 ASN469 Campylobacter ureolyticus, Fusobacterium species Enterococcus 92.8 8 Streptococcus intermedius/anginosus
 ASN470 VRE VRE 74.8 8,5 Streptococcus intermedius/anginosus, Streptococcus pneumoniae/oralis/mitis
 ASN465 Negative VRE 95.4 8 Streptococcus intermedius/anginosus
 ASN463 Negative Not Done 97.4 8 Streptococcus intermedius/anginosus
Group 1-B
 ASN366 Negative Streptococcus anginosus, Prevotella species, CoNS 91.9 2,5 Staphylococcus aureus, Streptococcus pneumoniae/oralis/mitis
 ASN357 Negative VRE 97.8 5 Streptococcus pneumoniae/oralis/mitis
 ASN376 Not Done Not Done 90.1 5,2 Streptococcus pneumoniae/oralis/mitis, Staphylococcus aureus
 ASN368 Negative Klebsiella pneumoniae, Haemophilus parainfluenzae, Prevotella species 94.8 5,2 Streptococcus pneumoniae/oralis/mitis, Staphylococcus aureus
 ASN294 Staphylococcus aureus Staphylococcus aureus 94.9 5 Streptococcus pneumoniae/oralis/mitis
Group 2-AI
 ASN167 Negative SMG 94.1 32 Gammaproteobacteria
 ASN168 Not Done Fungal 96.9 32 Gammaproteobacteria
 ASN475 Pseudomonas aeruginosa Pseudomonas aeruginosa 98.0 15,32, 48 Proteobacteria, Gammaproteobacteria, Pseudomonas sp.
 ASN438 Negative Legionella pneumophila 98.4 3,4,379 Enterobacter sp., Klebsiella sp., Legionella sp.
 ASN429 Negative Legionella pneumophila 87.1 3 Enterobacter sp.
 ASN315 Negative Not Done 83.3 3 Enterobacter sp.
 ASN363 Staphylococcus aureus, Gram-negative bacilli Staphylococcus aureus 0.72 11 Serratia marcescens
Group 2-AII
 ASN338 Not Done Not Done 96.8 2,101 Staphylococcus aureus, Anaerococcus sp.
 ASN300 Negative Fungal 92.5 32 Gammaproteobacteria
 ASN292 Negative Not Done 91.0 6,76,125 Bacillus sp., Lachnospiraceae, Bacillus sp.
 ASN297 Fungal Fungal 92.1 40,15, 125, Streptococcus sp., Proteobacteria, Bacillus sp.
 ASN328 Negative Staphylococcus aureus, Streptococcus pneumoniae 94.9 2 Staphylococcus aureus
 ASN473 Pseudomonas aeruginosa Not Done 92.5 15 Proteobacteria
 ASN420 Negative Not Done 97.5 2,59 Staphylococcus aureus, Proteobacteria
Group 2-AIII
 ASN379 Negative Not Done 77.5 2 Staphylococcus aureus
 ASN371 CoNS Not Done 93.8 2,5,13 Staphylococcus aureus, Streptococcus pneumoniae/oralis/mitis, Escherichia coli
 ASN381 Negative Legionella pneumophila 94.0 13,3,2 Escherichia coli, Enterobacter sp., Staphylococcus aureus
 ASN432 Negative Group A Streptococcus 95.2 8,2,3 Streptococcus intermedius/anginosus, Staphylococcus aureus, Enterobacter sp.
 ASN444 Negative Not Done 99.2 8,3 Streptococcus intermedius/anginosus, Enterobacter sp.
 ASN340 Group C Streptococcus Not Done 99.3 2,13 Staphylococcus aureus, Escherichia coli
 ASN339 Negative Not Done 98.6 2,3 Staphylococcus aureus, Enterobacter sp.
 ASN343 Negative Fungal 99.7 2,15 Staphylococcus aureus, Proteobacteria
Group 2-AIV
 ASN415 Negative Not Done 93.3 97 Prevotella melaninogenica
Group 2-B
 ASN479 Negative Finegoldia magna 99.2 81 Finegoldia magna
Group 3-A
 ASN458 MRSA MRSA 84.2 2 Staphylococcus aureus
 ASN436 Negative VRE 92.5 2 Staphylococcus aureus
 ASN440 Enterococcus faecium Not Done 97.2 2 Staphylococcus aureus
 ASN451 Not Done Not Done 99.5 2 Staphylococcus aureus
 ASN409 Not Done Not Done 98.6 2 Staphylococcus aureus
 ASN418 Not Done Not Done 87.1 2 Staphylococcus aureus
 ASN454 Negative Not Done 98.4 2 Staphylococcus aureus
 ASN408 Not Done Not Done 80.2 2 Staphylococcus aureus
 ASN434 Pseudomonas aeruginosa Not Done 8.3 2 Staphylococcus aureus
 ASN424 Bifidobacterium species Not Done 88.8 2 Staphylococcus aureus
 ASN464 Not Done Not Done 76.2 2,8,5 Staphylococcus aureus, Streptococcus intermedius/anginosus, Streptococcus pneumoniae/oralis/mitis
 ASN348 Negative Micrococcus species, Streptococcus viridians group 98.2 2,5 Staphylococcus aureus, Streptococcus pneumoniae/oralis/mitis
 ASN466 Negative CoNS, Coryneform bacilli, Candida parapsilosis 92.8 2,8,13 Staphylococcus aureus, Streptococcus intermedius/anginosus, Escherichia coli
 ASN461 Fusobacterium necrophorum Fusobacterium 90.8 2,72 Staphylococcus aureus, Fusobacterium
Group 3-B
 ASN476 Escherichia coli Not Done 80.2 6,2,19 Bacillus sp., Staphylococcus aureus, Lysinibacillus sp.
 ASN474 Negative Not Done 32.6 6,2,17 Bacillus sp., Staphylococcus aureus, Moraxella sp.
 ASN477 Negative Not Done 96.6 6,2,32 Bacillus sp., Staphylococcus aureus, Gammaproteobacteria
  1. aRefers to any other clinical diagnostic culture results that pertained to that patient within 24 hours of whole blood collection
  2. bOTU number that represented most sequences identified and aligned in the Illumina analysis
  3. cResults from alignment of the top OTU representative sequence to curated 16S rRNA databases
  4. dBased on composite UPGMA trees generated using weighted UniFrac and jackknife resampling