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Table 1 QTL statistics for the microbiome traits in the G 10 mouse population

From: Host genetics and diet, but not immunoglobulin A expression, converge to shape compositional features of the gut microbiome in an advanced intercross population of mice

Trait

Best hit (genus)

Ch

Position (Mb)

CI (Mb)

LOD

FDR

a

d

%

Interaction

OTU15028

Blautia

1

49.1

43.3-50.7

4.53*

0.404

-0.20

-0.15

4.72

Diet (C)

Butyricicoccus

 

1

127.2

123.3-140.7

3.97

0.507

-0.18

0.02

4.50

Diet (HF)

ButyricicoccusOTU7

 

1

127.2

123.3-140.7

4.30*

0.425

-0.18

0.03

4.81

Diet (HF)

OTU18932

Prevotella

1

173.3

167.0-182.1

4.29*

0.425

0.09

0.05

4.51

 

ParabacteroidesOTU6

 

2

59.5

57.5-62.5

4.08

0.431

0.27

0.04

5.40

 

OTU24985

Alistipes

2

60.2

57.5-62.5

4.21

0.469

0

0.15

4.01

 

OTU29627

Hydrogenoanaerobacterium

2

172.5

170.3-173.6

4.51*

0.404

0.01

-0.24

5.48

Sex (M)

  

9

29.8

22.0-33.4

4.51*

0.404

-0.16

-0.02

4.71

 

OTU23089

Clostridium

3

16.9

11.8-22.6

4.05

0.431

0.19

-0.21

3.49

 

OTU26092

Blautia

3

20.4

11.8-22.6

4.97*

0.356

0.16

-0.25

3.87

 

OTU17889

Roseburia

4

12.5

8.3-19.7

3.99

0.480

0.11

0.18

3.60

Diet (C)

OTU3615

Desulfotomaculum

5

115.2

112.9-118.1

4.07

0.431

-0.24

-0.28

3.82

 

OTU32093

Eubacterium

6

54.0

53.1-59.2

5.08*

0.356

0.04

0.22

5.20

 

OTU35558

Desulfocurvus

6

115.6

112.2-120.0

4.42*

0.469

0.09

-0.08

4.52

 

Lactobacillusjohnsonii

 

6

126.9

122.4-131.6

4.08

0.431

-0.30

-0.11

4.12

 

ATCC33200

OTU14099

Butyricimonas

8

71.6

64.4-79.1

4.66*

0.404

-0.11

-0.27

4.62

 

OTU16090

Alistipes

8

74.9

64.4-79.1

4.10

0.439

-0.15

-0.25

4.20

 

OTU27257

Alistipes

8

77.5

66.5-79.1

4.16

0.431

-0.11

-0.25

4.08

 

OTU41353

Alistipes

9

37.3

34.6-40.9

7.99*

0.002

-0.16

-0.04

8.29

 

OTU29084

Clostridium

9

40.2

33.5-42.3

4.56*

0.404

-0.11

0.06

4.79

 

OTU17740

Prevotella

9

40.7

33.5-40.9

5.87*

0.139

-0.26

0.07

5.21

Diet (C)

  

X

66.1

54.5-74.6

4.07

0.469

-0.18

-0.02

5.21

 

OTU25269

Odoribacter

9

40.7

33.5-40.9

6.01*

0.137

-0.26

0.02

6.63

Diet (C)

OTU13989

Bacteriodes

9

40.7

40.5-42.4

4.51*

0.342

-0.10

0.13

4.20

Diet (HF)

OTU25483

Bacteriodes

9

40.7

33.5-40.9

6.04*

0.137

-0.21

0

6.83

Diet (C)

Lactococcus lactis

 

9

113.3

112.3-115.0

3.95

0.513

0.11

-0.07

3.71

 

OTU21572

Roseburia

10

6.4

4.7-9.07

4.24

0.469

0.07

0.17

3.72

 

OTU33466

Oscillibacter

11

41.8

35.1-44.5

4.12

0.469

-0.15

0.10

4.29

 

OTU22207

Alistipes

11

97.8

93.4-114.0

3.97

0.463

0.05

0.11

3.31

 

Odoribacter

 

14

17.1

10.5-20.3

4.39*

0.404

-0.04

-0.11

3.26

 

OdoribacterOTU6

 

14

17.1

10.5-20.3

4.04

0.431

-0.04

-0.10

3.04

 

OTU30840

Clostridium

14

71.1

67.6-87.5

4.67*

0.404

0.01

-0.25

6.40

 
  

18

68.4

65.4-70.2

3.93

0.500

-0.02

0.22

4.16

 

OTU46742

Hydrogenoanaerobacterium

14

88.7

79.7-87.5

4.87*

0.404

-0.11

-0.13

4.82

 

OTU20360

Bacteriodes

16

6.9

3.98-9.92

4.28*

0.425

-0.12

0.08

4.52

 

AlistipesOTU15

 

16

44.8

42.7-48.1

4.21

0.469

-0.06

0.07

4.76

Sex (M)

Mucispirillum

 

16

45.7

42.7-57.8

4.72*

0.404

0.28

-0.26

6.54

 

Mucispirillumschaedleri(T)

 

16

45.7

42.7-57.9

4.72*

0.404

0.28

-0.26

6.54

 

Lactobacillus

 

16

63.3

51.6-70.4

4.27*

0.469

-0.10

0.31

3.77

 

OTU17491

Odoribacter

17

48.7

51.9-58.2

4.11

0.439

-0.09

0.12

2.99

 

OTU23606

Bacteriodes

18

83.1

83.1-

4.01

0.480

0

-0.21

4.03

 

OTU29519

Clostridium

19

24.3

22.6-24.7

4.04

0.476

-0.22

0.23

4.30

 
  1. Shown are all QTLs affecting the microbiota traits that had LOD scores reaching the suggestive or significant (*) threshold level of significance. The false discovery rate (FDR) also is listed for each QTL, indicating its probability of being a false positive result. Locations and confidence intervals of the QTLs are given in Mb (from NCBI Build 37). Also shown is the percentage contribution (%) of each QTL to the total variance of each trait, and its additive (a), dominance (d) genotypic effects (bolded values indicate significance). QTLs affecting the microbiota in males only = Sex (M) and in females only = Sex (F). QTLs affecting the microbiota in mice fed only the control diet = Diet (C) and for mice fed only the high-fat diet = Diet (HF).