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Table 2 Summary of assembly statistics and ARGs assignments for 12 bacterial isolates obtained from four control subjects

From: Early-life gut microbiome modulation reduces the abundance of antibiotic-resistant bacteria

 

7005–11

7005–5

7005–9

7084–1

7084–4

7084–5

7122–1

7122–2

7122–9

7174–2

7174–4

7174–5

CARD ID

Name

Percentage identity (%) to CARD protein sequences (TBLASTN; E-value ≤0.001)

ARO:3000216

acrB

97.6

97.3

97.8

84.1

84.3

83.1

97.9

96.6

97.8

96.9

95.7

98.0

ARO:3003844

mfd

97.5

96.8

97.0

80.5

80.5

N/A

97.4

N/A

97.3

N/A

95.9

96.4

ARO:3000491

acrD

97.1

97.2

95.2

79.3

79.4

78.2

97.4

96.4

97.4

97.2

97.3

97.4

ARO:3000793

mdtB

95.4

93.8

N/A

81.4

81.4

N/A

95.8

93.3

95.8

91.4

N/A

96.0

ARO:3000794

mdtC

93.5

90.4

N/A

80.8

80.7

N/A

93.2

91.5

93.1

85.3

88.4

93.4

ARO:3000502

AcrF

95.7

93.2

95.6

N/A

N/A

N/A

95.7

94.6

94.9

94.0

91.8

96.4

ARO:3000830

cpxA

97.5

95.3

96.9

N/A

N/A

N/A

96.6

95.2

97.2

96.2

97.0

97.5

ARO:3000024

patA

96.2

95.2

95.4

84.9

84.7

N/A

96.6

96.2

96.7

92.1

96.4

96.7

ARO:3003950

msbA

97.6

96.5

97.3

N/A

N/A

N/A

97.5

N/A

97.5

97.1

94.2

97.5

ARO:3000074

emrB

97.9

97.0

96.0

84.4

84.3

83.6

97.7

96.8

97.6

N/A

95.7

97.9

ARO:3002985

arnA

96.7

96.3

95.4

N/A

N/A

N/A

97.0

96.7

96.9

N/A

95.1

97.0

ARO:3000237

TolC

97.2

96.4

95.3

N/A

N/A

N/A

97.4

97.0

97.5

97.0

91.1

97.2

ARO:3000518

CRP

98.3

98.0

96.1

85.8

85.8

N/A

98.1

95.8

98.1

97.5

98.1

98.3

ARO:3004126

LamB

97.4

96.9

96.5

83.5

83.5

83.6

97.5

97.0

97.8

97.1

97.2

97.5

ARO:3004055

CpxR

98.1

97.3

98.6

84.0

83.7

83.2

98.3

96.9

98.3

97.6

97.4

98.1

ARO:3000792

mdtA

94.6

90.5

N/A

77.5

77.7

N/A

94.8

91.4

95.0

91.0

N/A

95.7

ARO:3002986

bacA

97.2

96.8

95.6

80.7

80.7

79.3

97.7

97.8

97.9

96.4

96.6

97.8

ARO:3003578

PmrF

97.1

96.7

96.7

N/A

N/A

N/A

97.0

96.8

97.3

N/A

95.8

97.2

ARO:3001215

mdtL

95.8

95.6

95.2

N/A

N/A

N/A

96.3

95.5

96.2

95.2

95.8

96.4

ARO:3000027

emrA

96.6

96.4

95.5

N/A

N/A

N/A

97.2

95.4

97.2

92.6

95.8

96.5

ARO:3001328

MdfA

95.5

94.7

N/A

78.1

78.4

N/A

95.5

94.3

95.9

N/A

94.6

95.7

ARO:3003843

leuO

97.4

N/A

95.3

N/A

N/A

N/A

97.5

97.4

97.6

96.8

96.9

97.0

ARO:3003952

YojI

96.2

N/A

96.0

82.6

82.9

78.4

96.0

95.6

96.4

N/A

95.5

95.7

ARO:3001329

mdtG

96.6

95.3

96.5

N/A

N/A

N/A

96.9

93.9

96.9

N/A

96.1

97.2

ARO:3000516

emrR

97.7

97.7

96.8

83.3

N/A

N/A

97.7

96.2

97.7

89.6

96.1

97.7

ARO:3000309

emrD

97.3

96.9

96.8

N/A

N/A

N/A

97.1

97.1

97.4

93.4

95.5

97.1

ARO:3000828

baeR

96.0

94.2

N/A

N/A

N/A

N/A

96.5

94.1

96.4

95.4

95.6

95.8

ARO:3004043

acrA

98.7

97.3

98.0

78.1

78.2

N/A

98.7

97.9

98.5

96.8

90.6

98.7

ARO:3003841

kdpE

95.4

94.9

94.2

N/A

N/A

N/A

95.8

N/A

95.8

93.9

95.8

96.0

ARO:3001216

mdtH

97.9

95.2

97.3

N/A

N/A

N/A

98.0

96.2

98.2

N/A

N/A

97.9

ARO:3003049

rosB

N/A

N/A

N/A

N/A

N/A

N/A

N/A

N/A

N/A

N/A

N/A

N/A

ARO:3004108

rob

N/A

N/A

N/A

N/A

N/A

N/A

N/A

N/A

N/A

N/A

N/A

N/A

ARO:3001327

MdtK

75.1

73.9

74.9

N/A

N/A

N/A

74.8

N/A

74.7

74.4

73.9

75.0

ARO:3000263

marA

96.1

96.1

N/A

N/A

N/A

N/A

96.4

95.1

96.6

96.4

N/A

97.4

ARO:3002818

msrB

98.1

N/A

98.3

89.3

90.4

82.5

97.1

96.2

96.6

N/A

96.6

98.3

ARO:3000676

H-NS

98.1

98.6

95.9

87.1

85.4

83.2

97.3

95.9

98.1

N/A

96.7

98.8

ARO:3003048

rosA

N/A

N/A

N/A

73.9

74.5

72.1

N/A

N/A

N/A

N/A

N/A

N/A

ARO:3000378

MexB

73.2

80

92.3

94.6

83.3

94.7

81.2

91.1

79.1

86.4

100

78.5

ARO:3000826

sdiA

77.4

63.7

N/A

100

81.1

N/A

82.1

85.7

63.1

57.9

N/A

84.2

ARO:3000829

baeS

96.2

58.15

45.0

92.72

70.83

45.7

97.0

53.9

97.6

67.8

93.5

95.2

N. of total CARD hits

75

70

81

38

38

18

74

61

77

226

55

408

Taxonomy

Escherichia coli

Escherichia coli

Escherichia coli

Raoultella planticola

Raoultella planticola

Raoultella planticola

Escherichia coli

Escherichia coli

Escherichia coli

Escherichia coli

Escherichia coli

Escherichia coli

Ref. Genome Size (Mb)

4.8

4.8

4.8

5.8

5.8

5.8

4.8

4.8

4.8

4.8

4.8

4.8

Coverage (based on reference)

22.1x

8.7x

7.5x

14.6x

40x

5.4x

32.7x

8.14x

37.3x

6x

7x

28.6x

Number of contigs

5

53

46

3

1

92

3

57

3

80

66

3

N50 (Mb)

1.57

1.29

1.68

2.32

5.47

4.12

4.67

1.14

4.67

0.51

0.83

4.83