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Table 2 Specificity test.

From: High taxonomic level fingerprint of the human intestinal microbiota by Ligase Detection Reaction - Universal Array approach

DNA Target

Positive signal

SNR other

SNR spec

p-valus spec

B. fragilis ATCC25285

Bacterodes/Prevotella

0.85

30.81

9.35E-05

  

0.53

21.45

7.39E-04

B. thetaiotaomicrom ATCC29143

Bacterodes/Prevotella

0.45

61.44

2.56E-04

  

1.66

347.24

9.10E-06

L. gasseri DSM20243

Lactobacillaceae

0.30

5.58

4.98E-03

  

1.56

20.59

6.58E-03

P. melaninogenica ATCC25845

Bacterodes/Prevotella

1.54

480.24

6.02E-08

  

0.90

266.63

3.74E-09

B. subtilis DSM704

Bacillus subtilis

7.93

637.39

1.56E-09

  

5.62

350.10

1.47E-05

E. coli ATCC11105

Enterobacteriaceae

3.27

555.04

8.65E-08

  

2.59

222.39

4.50E-07

P. mirabilis DSM4479

Proteus, Enterobacteriaceae

2.42

703.22

7.74E-09

  

2.03

497.10

1.97E-09

B. bifidum DSM20456

Bifidobacteriaceae

2.67

289.39

4.78E-11

  

2.23

407.10

2.40E-08

L. casei DSM20011

Lactobacillaceae, L. casei

2.59

125.13

1.01E-04

  

2.26

134.78

5.92E-04

Y. enterocolitica (faecal isolate)

Yersinia enterocolitica, Enterobacteriaceae

1.53

231.33

1.01E-05

  

2.89

340.20

1.61E-06

B. cereus DSM31

Bacillus cereus

2.83

193.85

1.53E-06

  

2.49

196.82

4.16E-03

B. adolescentis ATCC15703

Bifidobacteriaceae

4.10

732.95

3.95E-10

  

2.90

338.59

5.59E-07

L. ramnosus DSM20021

Lactobacillaceae, L. casei

2.40

101.76

1.41E-03

  

4.23

177.70

4.62E-07

L. delbrueckii DSM20074

Lactobacillaceae

3.77

210.11

2.24E-08

  

3.10

121.93

6.27E-08

L. pentosus DSM20314

Lactobacillaceae

3.05

131.65

4.58E-09

  

1.63

58.30

5.32E-07

L. acidophilus DSM20079

Lactobacillaceae

2.39

68.49

8.70E-05

  

2.66

78.50

5.88E-06

L. reuteri DSM20016

Lactobacillaceae

3.17

150.57

4.66E-09

  

1.74

83.60

1.98E-07

L. plantarum DSM21074

Lactobacillaceae, L. plantarum

2.12

197.32

3.79E-09

  

2.09

148.35

2.77E-08

C. difficile ATCCBAA1382

Clostridium XI, Clostridium difficile

1.12

238.87

4.88E-04

  

0.80

126.38

1.96E-03

C. jejuni ATCC33292

Campylobacter jejuni

0.70

19.89

5.29E-03

  

0.91

28.44

5.69E-03

V. parvula ATCC10790

Veillonella, Clostridium IX

1.12

205.66

1.57E-04

  

0.99

140.95

1.39E-04

B. breve DSM20091

Bifidobacteriaceae

2.22

570.01

6.22E-05

  

1.69

289.07

2.72E-04

B. longum ATCC15707

Bifidobacteriaceae, B. longum

1.76

341.94

1.64E-03

  

0.66

134.86

4.26E-02

R. productus ATCC 23340

Clostridium XIVa

0.64

4.21

1.41E-03

  

1.06

17.16

1.24E-06

L. salivarius SV2

Lactobacillaceae, L. salivarius

0.89

12.23

4.34E-04

  

0.65

7.27

2.69E-05

E. faecalis ATCC700802

E. faecalis

3.12

306.51

1.09E-03

  

2.27

217.16

6.56E-03

C. leptum DSM73

Ruminocuccos bromii Clostridium IV

2.28

88.89

5.52E-07

  

1.13

39.86

2.00E-07

R. albus DSM20455

Ruminocuccos albus Clostridium IV

1.46

47.05

2.50E-07

  

1.41

32.01

4.37E-06

  1. Table reporting the results of the tests to assess probe specificity: 28 bacterial DNA targets were chosen to validate the probe pairs. For each DNA analyzed we report: probe pair showing significant signals, SNRs, SNRns (see main text for acronym definitions). The p-values of specific probes are reported for each duplicate experiment. Where needed (i.e. more than one probe pair was present), data are the average of the positive signals (for both SNRs and p-values)