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Table 3 Numbers of active metabolic reactions in iSR929 by running simulation based on the transcriptomic data

From: Metabolic characterization of the chitinolytic bacterium Serratia marcescens using a genome-scale metabolic model

 

Glucose

N-acetylglucosamine

Glycerol

Carbohydrate metabolism

 Butanoate metabolism

4

4

2

 Citrate cycle (TCA cycle)

13

0

10

 Glycolysis / Gluconeogenesis

7

10

9

 Glyoxylate and dicarboxylate metabolism

3

2

1

 Pentose and glucuronate interconversions

0

2

2

 Pentose phosphate pathway

6

14

11

 Propanoate metabolism

1

0

1

 Pyruvate metabolism

6

5

6

 Amino sugar and nucleotide sugar metabolism

2

2

2

Amino acid metabolism

 Alanine, aspartate and glutamate metabolism

4

3

5

 Arginine and proline metabolism

9

10

23

 beta-Alanine metabolism

0

0

2

 Glutathione metabolism

2

2

0

 Taurine and hypotaurine metabolism

2

2

2

 Valine, leucine and isoleucine biosynthesis

5

2

2

 Glycine, serine and threonine metabolism

16

9

7

Nucleic acid metabolism

 Purine metabolism

6

1

6

 Pyrimidine metabolism

0

9

1

Lipid metabolism

 Fatty acid degradation

2

0

0

 Glycerophospholipid metabolism

8

4

4

 Alpha-Linolenic acid metabolism

2

2

2

Energy metabolism

 Oxidative phosphorylation

3

3

4

 Nitrogen metabolism

0

0

1

Metabolism of cofactors and vitamins

 Pantothenate and CoA biosynthesis

3

1

0

 Riboflavin metabolism

2

2

2

 One carbon pool by folate

6

6

6

Biosynthesis of other secondary metabolites

 Monobactam biosynthesis

2

2

2

 Streptomycin biosynthesis

2

2

2

Xenobiotics metabolism

 Benzoate degradation

1

0

0

 Nitrotoluene degradation

2

2

2

Transportation

31

31

29

Total

150

132

146