Table 2.
Number of differentially expressed (DE) genes per KEGG category of selected MAGs in R1 (single-stage configuration) and R3 (methanogenic reactor of the two-stage configuration)
| MAG | M. thermophila UC0006 | M. wolfeii UC0008 | C. proteolyticus UC0011 | T. acetatoxydans UC0018 | A. hydrogeniformans UC0046 | D. tunisiensis UC0050 | ||||
|---|---|---|---|---|---|---|---|---|---|---|
| Reactor | ||||||||||
| KEGG category | R3 | R1 | R3 | R1 | R3 | R1 | R3 | R1 | R1 | R3 |
| ABC transporters | 3 | 5 | 4 | 2 | 0 | 7 | 10 | 4 | 0 | 11 |
| Amino acids metabolism | 19 | 5 | 0 | 0 | 5 | 5 | 35 | 8 | 0 | 21 |
| Bacterial chemotaxis | 0 | 0 | 0 | 0 | 0 | 3 | 8 | 1 | 0 | 5 |
| Biosynthesis of amino acids | 43 | 4 | 3 | 0 | 4 | 3 | 37 | 2 | 0 | 39 |
| Biosynthesis of antibiotics | 18 | 8 | 4 | 3 | 10 | 4 | 28 | 1 | 0 | 6 |
| Biosynthesis of secondary metabolites | 13 | 8 | 3 | 3 | 5 | 4 | 28 | 0 | 0 | 20 |
| Butanoate metabolism | 3 | 1 | 1 | 1 | 6 | 0 | 3 | 0 | 0 | 7 |
| Carbon fixation pathways in prokaryotes | 3 | 4 | 2 | 0 | 7 | 0 | 5 | 1 | 0 | 5 |
| Carbon metabolism | 18 | 21 | 12 | 4 | 11 | 4 | 19 | 1 | 0 | 11 |
| Citrate cycle (TCA cycle) | 1 | 4 | 1 | 2 | 9 | 0 | 6 | 0 | 0 | 5 |
| Fatty acid metabolism | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 2 | 0 | 1 |
| Flagellar assembly | 0 | 0 | 0 | 0 | 0 | 0 | 7 | 0 | 0 | 0 |
| Galactose metabolism | 1 | 0 | 0 | 2 | 0 | 5 | 6 | 0 | 0 | 1 |
| Glycolysis/Gluconeogenesis | 1 | 1 | 1 | 2 | 7 | 4 | 11 | 0 | 0 | 5 |
| Metal transport system | 6 | 0 | 5 | 0 | 1 | 0 | 6 | 0 | 0 | 8 |
| Methane metabolism | 21 | 64 | 14 | 0 | 0 | 0 | 7 | 0 | 0 | 3 |
| Nitrogen metabolism | 5 | 0 | 0 | 0 | 1 | 1 | 3 | 1 | 0 | 1 |
| Peptidoglycan biosynthesis | 0 | 0 | 0 | 0 | 1 | 0 | 3 | 0 | 0 | 2 |
| Propanoate metabolism | 1 | 0 | 1 | 1 | 1 | 1 | 2 | 2 | 0 | 1 |
| Purine metabolism | 0 | 4 | 0 | 1 | 0 | 1 | 0 | 0 | 0 | 0 |
| Pyrimidine metabolism | 6 | 5 | 1 | 1 | 3 | 0 | 0 | 0 | 0 | 1 |
| Pyruvate metabolism | 0 | 3 | 0 | 3 | 0 | 1 | 0 | 0 | 0 | 0 |
| Quorum sensing | 4 | 0 | 0 | 1 | 2 | 0 | 13 | 0 | 3 | 7 |
| Reductive acetyl-CoA pathway (Wood-Ljungdahl) | 1 | 1 | 0 | 0 | 0 | 2 | 0 | 0 | 0 | 0 |
| Ribosome | 28 | 25 | 5 | 3 | 1 | 0 | 16 | 0 | 0 | 5 |
| Sugar, amino acid and oligo-peptide transport system | 0 | 0 | 0 | 0 | 1 | 0 | 25 | 0 | 0 | 1 |
| Triacylglycerol biosynthesis | 1 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 2 |
| Two-component system | 2 | 0 | 0 | 0 | 0 | 0 | 9 | 0 | 0 | 5 |