TABLE 3.
SEED Subsystems classification and relative abundance of bacterial transcripts as classified within MG-RAST.
| Subsystems classification | Transcript abundance | Percentage |
| Protein metabolism | 38096 | 17.58 |
| Clustering-based subsystems | 30959 | 14.29 |
| Carbohydrates | 20470 | 9.45 |
| Amino acids and derivatives | 12453 | 5.75 |
| Miscellaneous | 12115 | 5.59 |
| Stress response | 11476 | 5.30 |
| Membrane transport | 11407 | 5.26 |
| RNA metabolism | 10826 | 5.00 |
| Respiration | 9367 | 4.32 |
| Cell wall and capsule | 7470 | 3.45 |
| Cofactors, vitamins, prosthetic groups, pigments | 6761 | 3.12 |
| Motility and chemotaxis | 6525 | 3.01 |
| Nucleosides and nucleotides | 5820 | 2.69 |
| DNA metabolism | 5409 | 2.50 |
| Virulence, disease, and defense | 4876 | 2.25 |
| Fatty acids, lipids, and isoprenoids | 4717 | 2.18 |
| Iron acquisition and metabolism | 3402 | 1.57 |
| Regulation and cell signaling | 2786 | 1.29 |
| Cell division and cell cycle | 2681 | 1.24 |
| Phosphorus metabolism | 2270 | 1.05 |
| Phages, prophages, transposable elements, plasmids | 1617 | 0.75 |
| Nitrogen metabolism | 1356 | 0.63 |
| Potassium metabolism | 1173 | 0.54 |
| Metabolism of aromatic compounds | 1085 | 0.50 |
| Sulfur metabolism | 837 | 0.39 |
| Dormancy and sporulation | 571 | 0.26 |
| Secondary metabolism | 140 | 0.06 |
| Photosynthesis | 28 | 0.01 |
| Total | 216,693 | 100 |