TABLE 2.
Functional category and metabolic pathways encoded in the core genome
| Functional category/pathwaya | No. of core genes |
|
|---|---|---|
| L. crispatus | L. iners | |
| Carbohydrate metabolism | 85 | 59 |
| Glycolysis | 17 | 14 |
| Citric acid cycle | 3 | 1 |
| Pentose phosphate pathway | 14 | 12 |
| Fructose and mannose metabolism | 18 | 14 |
| Galactose metabolism | 11 | 8 |
| Starch and sucrose metabolism | 16 | 10 |
| Amino acid metabolism | 54 | 43 |
| Ala, Asp, and Glu metabolism | 11 | 10 |
| Gly, Ser, and Thr metabolism | 9 | 3 |
| Cys and Met metabolism | 8 | 5 |
| Lysine biosynthesis | 12 | 4 |
| Arginine biosynthesis | 3 | 1 |
| Lipid metabolism | 21 | 17 |
| Nucleic acid metabolism | 51 | 56 |
| Metabolism of cofactors and vitamins | 33 | 27 |
| Thiamine metabolism | 5 | 3 |
| Riboflavin metabolism | 5 | 1 |
| Vitamin B6 metabolism | 2 | 1 |
| Nicotinate metabolism | 5 | 5 |
| CoA biosynthesis | 5 | 5 |
| Folate biosynthesis | 2 | 5 |
| Membrane transporter | 70 | 54 |
| ABC transporter | 39 | 31 |
| Phosphate transport system | 23 | 15 |
| Bacterial secretion system | 8 | 8 |
| Replication and repair | 41 | 36 |
| DNA replication | 14 | 14 |
| Base excision repair | 9 | 7 |
| Nucleotide excision repair | 7 | 7 |
| Mismatch repair | 16 | 15 |
| Homologous recombination | 19 | 19 |
| Transcription | 4 | 5 |
| Translation | 78 | 79 |
| Peptidoglycan biosynthesis | 14 | 14 |
a
Entries in bold font represent functional categories while indented entries are specific metabolic pathways within each category. Enzymes can appear in multiple pathways but are only counted once in the functional category total. CoA, coenzyme A.