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Table 3 Top 20 enriched biological pathways

From: The symbiotic relationship between Caenorhabditis elegans and members of its microbiome contributes to worm fitness and lifespan extension

Worms grown with Chryseobacterium sp. CHNTR56 MYb120

Worms grown with Comamonas sp. 12022 MYb131

Pathway

Total

Expected

Hits

P.Value

FDR

Pathway

Total

Expected

Hits

P.Value

FDR

DNA replication

33

4.83

17

5.32E-07

6.64E-05

Circadian rhythm - mammal

23

1.43

10

3.49E-07

4.36E-05

TGF-beta signaling pathway

33

4.83

14

9.06E-05

0.00383

TGF-beta signaling pathway

33

2.05

11

2.09E-06

0.000131

Glutathione metabolism*

38

5.56

15

0.000136

0.00383

Drug metabolism - cytochrome P450*

32

1.99

10

1.21E-05

0.000505

Circadian rhythm - mammal

23

3.37

11

0.000144

0.00383

Metabolism of xenobiotics by cytochrome P450*

29

1.81

9

3.63E-05

0.00113

Wnt signaling pathway

64

9.37

21

0.000153

0.00383

Wnt signaling pathway

64

3.98

13

9.65E-05

0.00241

Fatty acid metabolism

56

8.2

17

0.00177

0.0357

Peroxisome

64

3.98

12

0.000403

0.00731

Taurine and hypotaurine metabolism

5

0.732

4

0.002

0.0357

Cysteine and methionine metabolism

31

1.93

8

0.00042

0.00731

Drug metabolism - cytochrome P450*

32

4.69

11

0.004

0.0625

Fatty acid metabolism

56

3.49

11

0.000468

0.00731

Calcium signaling pathway

42

6.15

13

0.00508

0.0706

Glutathione metabolism*

38

2.37

8

0.0018

0.0225

Metabolism of xenobiotics by cytochrome P450*

29

4.25

10

0.00587

0.0734

Taurine and hypotaurine metabolism

5

0.311

3

0.00215

0.0225

Mismatch repair

18

2.64

7

0.01

0.114

Arginine and proline metabolism

39

2.43

8

0.00215

0.0225

Biosynthesis of unsaturated fatty acids

16

2.34

6

0.0206

0.215

Biosynthesis of unsaturated fatty acids

16

0.996

5

0.00216

0.0225

Fatty acid elongation in mitochondria

13

1.9

5

0.0306

0.285

Limonene and pinene degradation

17

1.06

5

0.00291

0.0279

Pyrimidine metabolism

68

9.96

16

0.0319

0.285

Phenylalanine metabolism

18

1.12

5

0.00383

0.0342

Phenylalanine metabolism

18

2.64

6

0.037

0.307

Ubiquitin mediated proteolysis

84

5.23

12

0.00474

0.0395

Neuroactive ligand-receptor interaction

23

3.37

7

0.0404

0.307

Nitrogen metabolism

21

1.31

5

0.00781

0.0611

Cyanoamino acid metabolism

6

0.879

3

0.0442

0.307

Tyrosine metabolism

22

1.37

5

0.00962

0.0707

Sulfur metabolism

6

0.879

3

0.0442

0.307

ECM-receptor interaction

8

0.498

3

0.0105

0.0727

Progesterone-mediated oocyte maturation

39

5.71

10

0.0487

0.315

Lysosome

76

4.73

10

0.0172

0.113

–

     

alpha-Linolenic acid metabolism

11

0.685

3

0.0269

0.168

  1. Enriched biological pathways (KEGG) ranked by P-value are shown. Cellular detoxification related pathways are enriched in the worms grown with Chryseobacterium sp. CHNTR56 MYb120 or Comamonas sp. 12022 MYb131, in comparison with E. coli OP50. These pathways are indicated with asterisk (*)