Skip to main content

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).