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Table 1 Composition of the duodenal mucosa-associated microbiota in healthy control (HC) and celiac disease (CD) children: the relative abundance of HITChip genus-like groups and MAMP content estimation

From: Duodenal microbiota composition and mucosal homeostasis in pediatric celiac disease

   Relative abundance (%)*    
Phylum/Order Genus-like phylogenetic group HC CD Gram+/- Flagella GC%
Actinobacteria Propionibacterium 0.80 ± 0.90 1.43 ± 1.31 G+ N 60
  Bifidobacterium 0.52 ± 0.60 0.75 ± 0.98 G+ N 61
Bacilli Streptococcus mitis et rel 13.66 ± 11.64 19.35 ± 12.95 G+ N 40
  Streptococcus bovis et rel 9.21 ± 10.79 5.72 ± 3.99 G+ N 37
  Streptococcus intermedius et rel 6.38 ± 5.00 7.64 ± 5.12 G+ N 38
  Gemella 1.47 ± 2.27 1.77 ± 2.54 G+ N 31
  Enterococcus 0.28 ± 0.33 0.19 ± 0.22 G+ Y/N 38
  Granulicatella 0.24 ± 0.27 0.23 ± 0.28 G+ N 37
  Bacillus 0.17 ± 0.46 0.01 ± 0.01 G+ Y/N 38
  Aerococcus 0.16 ± 0.19 0.15 ± 0.19 G+ N 41
Bacteroidetes Prevotella melaninogenica et rel 5.29 ± 4.02 6.51 ± 9.75 G- N 41
  Allistipes et rel 2.03 ± 2.81 2.02 ± 3.37 G- N 55
  Parabacteroides distasonis et rel 1.76 ± 2.34 1.21 ± 2.23 G- N 45
  Bacteroides vulgatus et rel 0.92 ± 1.43 0.47 ± 0.88 G- N 42
  Tannerella et rel 0.88 ± 1.38 0.60 ± 1.08 G- N 47
  Bacteroides splachnicus et rel 0.79 ± 0.69 1.60 ± 2.73 G- N 43
  Prevotella tannerae et rel 0.76 ± 1.10 0.51 ± 0.64 G- N 47
  Prevotella oralis et rel 0.32 ± 0.29 0.16 ± 0.19 G- N 45
  Bacteroides intestinalis et rel 0.32 ± 0.49 0.20 ± 0.29 G- N 43
  Prevotella ruminicola et rel 0.29 ± 0.64 0.11 ± 0.14 G- N 48
  Bacteroides plebeius et rel 0.25 ± 0.30 0.44 ± 0.69 G- N 44
  Bacteroides stercoris et rel 0.17 ± 0.23 0.06 ± 0.07 G- N 46
  Bacteroides ovatus et rel 0.16 ± 0.23 0.08 ± 0.12 G- N 42
  Bacteroides fragilis et rel 0.10 ± 0.13 0.15 ± 0.28 G- N 44
Clostridium cl. I Clostridia 0.30 ± 0.78 0.01 ± 0.01 G+ Y/N 26
Clostridium cl. III Clostridium stercorarium et rel 0.14 ± 0.23 0.03 ± 0.08 G+ Y 39
Clostridium cl. IV Clostridium orbiscindens et rel 1.14 ± 1.69 0.19 ± 0.17 G+ Y 57
  Sporobacter termitidis et rel 0.56 ± 1.31 0.11 ± 0.18 G+ Y 57
  Clostridium leptum et rel 0.50 ± 1.07 0.13 ± 0.14 G+ N 50
  Anaerotruncus colihominis et rel 0.15 ± 0.41 4E-03 ± 0.01 G+ N 54
  Ruminococcus callidus et rel 0.14 ± 0.29 0.06 ± 0.03 G+ N 43
  Eubacterium siraeum et rel 0.14 ± 0.40 2E-03 ± 0.01 G+ Y/N 45
  Ruminococcus bromii et rel 0.13 ± 0.40 6E-07 ± 2E-06 G+ N 41
  Papillibacter cinnamivorans et rel 0.13 ± 0.28 0.01 ± 0.01 G+ N 56
Clostridium cl. IX Veillonella 2.36 ± 1.78 2.61 ± 3.40 G- N 39
Clostridium cl. XI Clostridium difficile et rel 0.13 ± 0.21 0.06 ± 0.02 G+ Y 29
Clostridium cl. XIVa Clostridium symbiosum et rel 2.79 ± 3.03 3.86 ± 2.51 G+ Y 46
  Ruminococcus obeum et rel 1.79 ± 2.28 1.48 ± 0.91 G+ N 42
  Bryantella formatexigens et rel 0.90 ± 1.34 0.24 ± 0.11 G+ N 50
  Coprococcus eutactus et rel 0.81 ± 1.50 0.21 ± 0.16 G+ N 43
  Dorea formicigenerans et rel 0.75 ± 1.07 0.25 ± 0.13 G+ N 41
  Butyrivibrio crossotus et rel 0.48 ± 1.12 0.08 ± 0.09 G+ Y 38
  Eubacterium rectale et rel 0.47 ± 0.76 0.62 ± 0.53 G+ Y/N 41
  Ruminococcus gnavus et rel 0.28 ± 0.51 0.09 ± 0.04 G+ N 43
  Lachnospira pectinoschiza et rel 0.26 ± 0.33 0.30 ± 0.18 G+ Y 44
  Clostridium sphenoides et rel 0.20 ± 0.44 0.09 ± 0.17 G+ Y 42
  Outgrouping Clostridium XIVa 0.20 ± 0.27 0.21 ± 0.18 G+ Y 33
  Anaerostipes caccae et rel 0.10 ± 0.17 0.07 ± 0.09 G+ N 44
Clostridium cl. XV Eubacterium limosum et rel 0.21 ± 0.61 4E-03 ± 0.01 G+ N 48
Clostridium cl. XVI Solobacterium moorei et rel 0.52 ± 1.02 0.04 ± 0.11 G+ N 38
Proteobacteria Sutterella wadsworthensis et rel 19.16 ± 13.81 18.78 ± 16.24 G- N 62
  Aquabacterium 9.61 ± 7.08 9.45 ± 9.20 G- Y 66
  Xanthomonadaceae 1.93 ± 2.96 1.90 ± 2.09 G- Y 61
  Moraxellaceae 1.19 ± 1.13 1.33 ± 1.06 G- N 42
  Vibrio 0.86 ± 0.54 1.35 ± 1.11 G- Y 47
  Escherichia coli et rel 0.61 ± 0.65 0.50 ± 0.33 G- Y 51
  Enterobacter aerogenes et rel 0.60 ± 0.90 0.58 ± 0.63 G- Y 55
  Burkholderia 0.45 ± 0.45 0.56 ± 0.47 G- Y 65
  Klebisiella pneumoniae et rel 0.40 ± 0.27 0.74 ± 0.50 G- N 57
  Oxalobacter formigenes et rel 0.29 ± 0.29 0.29 ± 0.33 G- N 51
  Haemophilus 0.25 ± 0.17 0.46 ± 0.31 G- N 39
  Pseudomonas 0.22 ± 0.15 0.40 ± 0.30 G- Y 65
  Proteus et rel 0.17 ± 0.27 0.04 ± 0.04 G- Y 38
  Serratia 0.10 ± 0.07 0.20 ± 0.15 G- Y 56
Uncult. Mollicutes Uncultured Mollicutes 0.20 ± 0.49 0.03 ± 0.02 G- N 31
Summary Proportion of Gram+ bacteria 46.1 ± 26.6 45.4 ± 25.5    
  Proportion of Gram- bacteria 52.5 ± 26.7 53.4 ± 25.3    
  Average GC% content of microbiome 48.6 ± 5.8 48.5 ± 6.4    
  Proportion of high-GC% bacteria 32.7 ± 23.3 33.3 ± 27.0    
  Propotion of flagellated bacteria 20.4 ± 8.2 19.9 ± 9.4    
  1. *Relative abundance of the total microbiota (mean ± standard deviation). No statistically significant differences in the abundance of individual genus-like bacterial groups between HC and CD.
  2. cl cluster, uncult uncultured, Gram +  Gram positive bacteria, Gram- Gram negative bacteria, high-GC% bacteria genomic GC% content is more than 58%, Y motile/flagellated, N non-motile/non-flagellated, Y/N motility variable (50% of the group were taken to be flagellated).