Table 3 Organisms detected in this study.

From: Comprehensive evaluation of complex polymicrobial specimens using next generation sequencing and standard microbiological culture

Classification group (CRC)aStudy prevalence (%)bHistoric prevalence (%)c
Actinomyces species*15 (75)27 (6.6)
Prevotella species*14 (70) 
viridans streptococci14 (70)126 (30.7)
Veillonella species*13 (65) 
aerobic non-sporeforming Grampositive rods12 (60)32 (7.8)
Rothia species11 (55)66 (16.1)
Campylobacter species*10 (50) 
Atopobium species*7 (35) 
Capnocytophaga species*7 (35)3 (0.7)
Staphylococcus, coagulase negative7 (35)96 (23.4)
Haemophilus species6 (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 aureus5 (25)38 (9.2)
Neisseria species4 (20)36 (8.8)
Selenomonas species*4 (20) 
Dermacoccus nishinomiyaensis3 (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 anthracis1 (5)1 (0.2)
Dermabacter species1 (5) 
Dermacoccus species1 (5) 
Eikenella corrodens1 (5)2 (0.5)
Marmoricola aurantiacus*1 (5) 
Peptoanaerobacter species*1 (5) 
Skermanella aerolata*1 (5) 
Tropheryma whipplei1 (5) 
Yeast/fungi1 (5)49 (11.9)
Enteric Gram-negative rod 48 (11.7)
Enterococcus species 20 (4.9)
Pseudomonas species 17 (4.1)
  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*.
  2. 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.
  3. cNumber of positive historical specimens (total number of specimens = 411); positive = reported in standard culture.