TABLE 1

Bacteria found in the 16S profiles

Finding in the bacterial profileaNo. of samples positive for the species (n = 90)
No. of positive samples% of all samples
Streptococcus pneumoniae 2831
    As a dominant pathogenb1416
    Sole finding but <50% of signalc33.3
    Nondominant part of mixed florad1112
Haemophilus influenza 2427
    As a dominant pathogen1517
    Sole finding but <50% of signal33.3
    Nondominant part of mixed flora66.7
Moraxella catarrhalis 1820
    As a dominant pathogen55.6
    Sole finding but <50% of signal44.4
    Nondominant part of mixed flora910
Staphylococcus spp.2123
    As a dominant pathogen33.3
    Sole finding but <50% of signal66.7
    Nondominant part of mixed flora1213
Turicella otitidis 55.6
    As a dominant pathogen22.2
    Sole finding but <50% of signal11.1
    Nondominant part of mixed flora22.2
Alloiococcus otitidis 33.3
    As a dominant pathogen00
    Sole finding but <50% of signal00
    Nondominant part of mixed flora33.3
Other bacteria not listed above1416
    As a dominant pathogen00
    Sole finding but <50% of signal3e3.3
    Nondominant part of mixed flora11f12
No clear bacterial finding1416
    No bacterium found1112
    Undetermined species, <5% of signal33.3
  • a The bacteria originating from the PCR components (Taq polymerase) are not shown.

  • b A dominant pathogen was defined as a bacterium that makes up half or more of the total 16S rRNA gene profile.

  • c Bacterium occupying 3.0 to 49% of the sequencing signal; no other bacteria were detectable over the threshold 3.0% signal except the contaminant signal from Taq polymerase.

  • d Bacterium occupying 3 to 49% of the sequencing signal; also, other bacteria were present in the profile at >3.0%.

  • e Prevotella melaninogenica (4% in sample from patient 41 and 6% in sample from patient 48) and undetermined Sphingobacterium (8% in patient 72). All three samples were taken by myringotomy.

  • f Prevotella melaninogenica (31% of the profile of sample from patient 73, 3% in patient 22, and 4% in patient 50), Veillonella dispar (20% in patient 73 and 10% in patient 72), Veillonella montpellierensis (13% in patient 67, 6% in patient 73, and 4% in patient 2), Lactococcus lactis (7% in patient 15 and 7% in second sample from patient 59), Corynebacterium tuberculostearicum (4% from patient 50 and 3% from patient 70, both in samples with dominant S. pneumoniae), and undetermined Sphingobacterium.