Table 4 Relative abundances of metabolic functions (based on subsystem annotation) as determined by shotgun metagenomic sequencing of the rumen microbiome as affected by Saccharomyces cerevisiae fermentation products (SCFP) supplementation and a subacute ruminal acidosis (SARA) challenge

Amino Acids and Derivatives

9.78

12.44

8.14

7.94

1.95

0.53

0.13

0.47

Carbohydrates

13.11

12.44

17.17

14.24

1.78

0.32

0.11

0.53

Cell Division and Cell Cycle

0.23

0.2

0.26

0.34

0.12

0.84

0.49

0.62

Cell Wall and Capsule

7.72

4.5

4.2

5.58

1.19

0.45

0.32

0.06

Clustering-based Subsystems

2.04

3.67

2.71

2.49

0.67

0.3

0.7

0.18

Cofactors, Vitamins, Prosthetic Groups, Pigments

2.52

3.5

2.98

2.8

0.5

0.43

0.81

0.25

DNA Metabolism

1.82

1.65

1.48

1.84

0.37

0.8

0.84

0.48

Dormancy and Sporulation

0.03

0.55

0.03

0.12

0.24

0.23

0.37

0.39

Fatty Acids, Lipids, and Isoprenoids

4.72

4.95

8.08

2.78

1.99

0.21

0.77

0.18

Iron Acquisition and Metabolism

0.34

0.57

0.79

0.34

0.22

0.62

0.64

0.13

Membrane Transport

0.39

0.72

0.79

0.62

0.17

0.63

0.39

0.16

Metabolism of Aromatic Compounds

0.7^b

1.24^a

0.58^b

1.48^a

0.03

0.04

0.86

0.59

Miscellaneous

2.39

3.26

3.03

2.56

0.54

0.72

0.96

0.23

Motility and Chemotaxis

0.08

0.25

0.13

0.51

0.18

0.13

0.39

0.57

Nitrogen Metabolism

1.7^x

0.86^y

1.18

1.39

0.26

0.24

0.99

0.06

Nucleosides and Nucleotides

0.55

0.63

1.05^x

0.37^y

0.19

0.13

0.53

0.06

Phages, Prophages, Transposable Elements, Plasmids

21.64

19.52

18.61

19.13

8.53

0.88

0.8

0.92

Phosphorus Metabolism

0.11

0.16

0.99^a

0.14^b

0.18

0.03

0.02

0.02

Photosynthesis

0.11^b

0.18^a

0.09^b

0.19^a

0.03

0.01

0.91

0.64

Potassium Metabolism

0.05

0.07

0.12

0.02

0.03

0.24

0.82

0.10

Protein Metabolism

16.18

16.69

11.71

19.18

2.19

0.08

0.66

0.12

Regulation and Cell Signaling

0.17

0.16

0.29

0.15

0.07

0.29

0.48

0.35

Respiration

6.08

4.67

5.72

7.38

0.91

0.89

0.21

0.10

RNA Metabolism

6.1

4.64

5.62

6.82

1.04

0.9

0.42

0.21

Secondary Metabolism

0.12

0.35

1.99

0.59

0.52

0.27

0.05

0.13

Stress Response

0.23

0.52

0.75

0.59

0.16

0.66

0.08

0.18

Sulfur Metabolism

0.31^b

0.93^a

0.54

0.44

0.17

0.15

0.47

0.05

Virulence, Disease and Defense

0.76

0.68

0.97

0.96

0.23

0.86

0.31

0.88