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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