Table 3.
Organisms detected in this study.
| Classification group (CRC)a | Study prevalence (%)b | Historic prevalence (%)c |
|---|---|---|
| Actinomyces species* | 15 (75) | 27 (6.6) |
| Prevotella species* | 14 (70) | |
| viridans streptococci | 14 (70) | 126 (30.7) |
| Veillonella species* | 13 (65) | |
| aerobic non-sporeforming Grampositive rods | 12 (60) | 32 (7.8) |
| Rothia species | 11 (55) | 66 (16.1) |
| Campylobacter species* | 10 (50) | |
| Atopobium species* | 7 (35) | |
| Capnocytophaga species* | 7 (35) | 3 (0.7) |
| Staphylococcus, coagulase negative | 7 (35) | 96 (23.4) |
| Haemophilus species | 6 (30) | 31 (7.5) |
| Lachnoanaerobaculum species* | 6 (30) | |
| Lactobacillus species* | 6 (30) | 47 (11.4) |
| Megasphaera species* | 6 (30) | |
| Solobacterium moorei* | 6 (30) | |
| Fusobacterium species* | 5 (25) | |
| Oribacterium species* | 5 (25) | |
| Staphylococcus aureus | 5 (25) | 38 (9.2) |
| Neisseria species | 4 (20) | 36 (8.8) |
| Selenomonas species* | 4 (20) | |
| Dermacoccus nishinomiyaensis | 3 (15) | |
| Porphyromonas species* | 3 (15) | |
| Stomatobaculum species* | 3 (15) | |
| Alloprevotella species* | 2 (10) | |
| Dialister species* | 2 (10) | |
| Leptotrichia species* | 2 (10) | |
| Parvimonas micra* | 2 (10) | |
| Peptostreptococcus species* | 2 (10) | |
| [Eubacterium] sulci* | 1 (5) | |
| [Eubacterium] yurii* | 1 (5) | |
| Anaeroglobus species* | 1 (5) | |
| Bacillus species, not Bacillus anthracis | 1 (5) | 1 (0.2) |
| Dermabacter species | 1 (5) | |
| Dermacoccus species | 1 (5) | |
| Eikenella corrodens | 1 (5) | 2 (0.5) |
| Marmoricola aurantiacus* | 1 (5) | |
| Peptoanaerobacter species* | 1 (5) | |
| Skermanella aerolata* | 1 (5) | |
| Tropheryma whipplei | 1 (5) | |
| Yeast/fungi | 1 (5) | 49 (11.9) |
| Enteric Gram-negative rod | 48 (11.7) | |
| Enterococcus species | 20 (4.9) | |
| Pseudomonas species | 17 (4.1) |
aTo facilitate comparisons between culture and NGS16S analysis, organisms were assigned to classification groups as detailed in Table 1 and Supplementary Table S1. Anaerobes are noted with an*.
bNumber of positive study specimens (total number of specimens = 20); positive is defined as reportable by standard culture or NGS16S and/or identified in at least one culture plate wash.
cNumber of positive historical specimens (total number of specimens = 411); positive = reported in standard culture.