Table 1.
Overview of significantly enriched KEGG-pathways in biofilms.
| COMPARISON OF THE FREE CELL PERIOD (FCP) vs. THE ATTACHMENT PERIOD (AP) | |||||
|---|---|---|---|---|---|
| Pathway ID | Pathway | DEGs with pathway annotation (648) | All genes with pathway annotation (2143) | P-value | Q-value* |
| ko00020 | Citrate cycle (TCA cycle) | 26 (4.01%) | 32 (1.49%) | 2.70E-09 | 2.53E-07 |
| ko00010 | Glycolysis/ Gluconeogenesis | 37 (5.71%) | 55 (2.57%) | 1.05E-08 | 4.93E-07 |
| ko03008 | Ribosome biogenesis in eukaryotes | 50 (7.72%) | 91 (4.25%) | 4.66E-07 | 1.46E-05 |
| ko00190 | Oxidative phosphorylation | 42 (6.48%) | 76 (3.55%) | 3.32E-06 | 7.81E-05 |
| ko00630 | Glyoxylate and dicarboxylate metabolism | 17 (2.62%) | 22 (1.03%) | 6.50E-06 | 1.22E-04 |
| ko00620 | Pyruvate metabolism | 22 (3.4%) | 33 (1.54%) | 1.47E-05 | 2.31E-04 |
| ko00380 | Tryptophan metabolism | 13 (2.01%) | 16 (0.75%) | 3.44E-05 | 4.63E-04 |
| ko00680 | Methane metabolism | 19 (2.93%) | 28 (1.31%) | 3.99E-05 | 4.69E-04 |
| ko00071 | Fatty acid metabolism | 13 (2.01%) | 17 (0.79%) | 0.000106059 | 1.11E-03 |
| ko00260 | Glycine, serine, and threonine metabolism | 19 (2.93%) | 30 (1.4%) | 0.000164023 | 1.54E-03 |
| ko03020 | RNA polymerase | 18 (2.78%) | 30 (1.4%) | 0.000638511 | 5.30E-03 |
| ko00920 | Sulfur metabolism | 12 (1.85%) | 17 (0.79%) | 0.000676888 | 5.30E-03 |
| ko00030 | Pentose phosphate pathway | 17 (2.62%) | 28 (1.31%) | 0.000748489 | 5.41E-03 |
| ko00230 | Purine metabolism | 43 (6.64%) | 94 (4.39%) | 0.000856499 | 5.75E-03 |
| ko00640 | Propanoate metabolism | 9 (1.39%) | 12 (0.56%) | 0.001749713 | 1.10E-02 |
| COMPARISON OF THE FREE CELL PERIOD (FCP) vs. THE SESSILE GROWTH PERIOD (SGP) | |||||
| Pathway ID | Pathway | DEGs with pathway annotation (518) | All genes with pathway annotation (2143) | P-value | Q-value* |
| ko03010 | Ribosome | 69 (13.32%) | 183 (8.54%) | 1.33E-05 | 0.001223771 |
| ko00640 | Propanoate metabolism | 9 (1.74%) | 12 (0.56%) | 0.000285205 | 0.013119444 |
| ko00900 | Terpenoid backbone biosynthesis | 11 (2.12%) | 18 (0.84%) | 0.000872115 | 0.023510158 |
| ko00380 | Tryptophan metabolism | 10 (1.93%) | 16 (0.75%) | 0.001190103 | 0.023510158 |
| ko00230 | Purine metabolism | 36 (6.95%) | 94 (4.39%) | 0.001277726 | 0.023510158 |
| ko00100 | Steroid biosynthesis | 9 (1.74%) | 14 (0.65%) | 0.00160835 | 0.024661367 |
| ko00040 | Pentose and glucuronate interconversions | 7 (1.35%) | 10 (0.47%) | 0.002781217 | 0.036553138 |
| ko00650 | Butanoate metabolism | 10 (1.93%) | 18 (0.84%) | 0.004022897 | 0.043771998 |
| ko00561 | Glycerolipid metabolism | 11 (2.12%) | 21 (0.98%) | 0.004678847 | 0.043771998 |
| ko03008 | Ribosome biogenesis in eukaryotes | 33 (6.37%) | 91 (4.25%) | 0.005600554 | 0.043771998 |
| ko00260 | Glycine, serine, and threonine metabolism | 14 (2.7%) | 30 (1.4%) | 0.005637695 | 0.043771998 |
| ko00620 | Pyruvate metabolism | 15 (2.9%) | 33 (1.54%) | 0.005709391 | 0.043771998 |
| COMPARISON OF THE FREE CELL PERIOD (FCP) vs. THE BIOFILM MATURATION PERIOD (BMP) | |||||
| Pathway ID | Pathway | DEGs with pathway annotation (376) | All genes with pathway annotation (2143) | P-value | Q-value* |
| ko03010 | Ribosome | 120 (31.91%) | 183 (8.54%) | 5.17E-53 | 4.55E-51 |
| ko00640 | Propanoate metabolism | 8 (2.13%) | 12 (0.56%) | 0.000215299 | 9.47E-03 |
| ko00010 | Glycolysis/ Gluconeogenesis | 19 (5.05%) | 55 (2.57%) | 0.00161897 | 4.75E-02 |
*
Pathways with Q-values ≤ 0.05 were significantly enriched in differentially expressed genes (DEGs).