Skip to main content

Table 4 Bacterial species identified

From: Analysis of microbial sequences in plasma cell-free DNA for early-onset breast cancer patients and healthy females

ID

Species

No. of contigs

Total aligned length

Total no. of associated PE reads

Total no. of associated SE reads

Sum of PE and SE reads

MCRPM

BBC ctl

      

(sum/372)

 

Acinetobacter johnsonii XBB1

17

5,428

69

30

99

0.27

 

Bacillus cereus

2

708

6

35

41

0.11

 

Mycobacterium sp.

4

2,124

73

70

143

0.38

 

Ralstonia mannitolilytica

4

1,227

31

12

43

0.12

EJC ctl

      

(sum/389)

 

Acinetobacter haemolyticus

12

4,345

59

30

89

0.23

 

Acinetobacter johnsonii XBB1

231

99,403

1,719

616

2,335

6.00

 

Acinetobacter junii

4

1,948

30

7

37

0.10

 

Acinetobacter lwoffii

17

6,186

87

31

118

0.30

 

Acinetobacter schindleri

4

1,770

43

16

59

0.15

 

Bacillus cereus

4

1,314

31

51

82

0.21

 

Corynebacterium pseudotuberculosis

2

588

2

48

50

0.13

 

Methylobacterium populi

18

5,102

54

18

72

0.19

 

Mycobacterium abscessus

4

2,238

53

14

67

0.17

 

Mycobacterium avium

8

2,751

30

15

45

0.12

 

Mycobacterium sp.

8

2,620

36

63

99

0.25

 

Mycoplasma mycoides

1

276

17

28

45

0.12

 

Porphyrobacter sp.

7

2,478

20

34

54

0.14

 

Ralstonia mannitolilytica

8

2,899

37

40

77

0.20

 

Sphingomonas sp.

11

3,533

27

28

55

0.14

BC 0145

      

(sum/375)

 

Pannonibacter phragmitetus

714

230,779

1,999

1,309

3,308

8.82

 

Pseudomonas aeruginosa

2

1,824

254

78

332

0.89

 

Pseudomonas alcaliphila

6

5,093

896

170

1,066

2.84

 

Pseudomonas mendocina ymp

1,675

2,678,493

918,733

109,787

1,028,520

2,742.72

 

Pseudomonas sp.

3

1,195

41

36

77

0.21

 

Pseudomonas stutzeri

3

1,717

220

21

241

0.64

 

Rhizobium sp.

34

12,418

144

65

209

0.56

BC 0190

      

(sum/426)

 

Acinetobacter baumannii

2

1,078

29

17

46

0.11

 

Acinetobacter johnsonii XBB1

71

24,930

366

168

534

1.25

 

Bacillus cereus

4

1,172

24

76

100

0.23

 

Methylobacterium populi

38

10,970

123

72

195

0.46

 

Mycobacterium abscessus

5

2,599

67

28

95

0.22

 

Mycobacterium sp.

7

2,432

52

88

140

0.33

 

Porphyrobacter sp.

6

2,195

38

31

69

0.16

 

Ralstonia mannitolilytica

7

2,370

19

53

72

0.17

 

Sphingomonas sp.

17

5,030

63

44

107

0.25

CGBC 025

      

(sum/579)

 

Acinetobacter baumannii

24

6,818

118

48

166

0.29

 

Bradyrhizobium sp.

7

2,059

41

16

57

0.10

 

Enterobacter cloacae

8

3,140

108

33

141

0.24

 

Sphingobium japonicum

8

5,088

262

43

305

0.53

 

Sphingomonas melonis

336

157,346

5,397

2,503

7,900

13.64

 

Sphingomonas panacis

4

1,261

36

30

66

0.11

 

Sphingomonas sp.

51

21,410

720

271

991

1.71

  1. Only microbial species with MCRPM ≥ 0.1 are listed. Those with MCRPM ≥ 1 are listed in bold.
  2. Ctl control; MCRPM, microbial cfDNA per million quality PE reads; sp. (same as spp.), species with unspecified species name
Back to article page

BMC Medical Genomics

ISSN: 1755-8794

Contact us