TABLE 1.
Regulation of genes in C. sakazakii treated by ajoene
| Regulation category and annotation cluster | Term and function | Fold enrichment | Benjamini FDR |
|---|---|---|---|
| Upregulation | |||
| 1 (enrichment score, 1.24) | IPR012287; homeodomain related | 2.21 | 1.00 |
| IPR012287; transcription | 1.62 | 0.80 | |
| IPR001647; transcriptional regulator, TetR like, DNA binding, bacterial/archaeal | 2.35 | 1.00 | |
| 2 (enrichment score, 1.18) | IPR002059; cold shock protein, DNA binding | 5.95 | 1.00 |
| IPR019844; cold shock protein conserved site | 5.95 | 1.00 | |
| SM00357; cold shock protein | 3.73 | 0.82 | |
| IPR011129; cold shock protein | 3.72 | 1.00 | |
| PIRSF002599; cold_shock_A | 5.62 | 1.00 | |
| IPR012156; cold shock protein, CspA | 5.58 | 1.00 | |
| IPR012340; Nucleic acid binding, OB-folda | 1.65 | 1.00 | |
| 3 (enrichment score, 1.16) | GO:0042592; homeostatic process | 2.68 | 0.97 |
| GO:0045454; cell redox homeostasis | 3.02 | 0.91 | |
| GO:0019725; cellular homeostasis | 2.39 | 0.98 | |
| GO:0015035; protein disulfide oxidoreductase activity | 3.17 | 1.00 | |
| GO:0016667; oxidoreductase activity, acting on sulfur group of donors | 2.16 | 1.00 | |
| IPR017936; thioredoxin like | 2.97 | 1.00 | |
| GO:0015036; disulfide oxidoreductase activity | 2.64 | 0.99 | |
| IPR012335; thioredoxin fold | 1.73 | 1.00 | |
| Downregulation | |||
| 1 (enrichment score, 5.50) | GO:0050136; NADH dehydrogenase (quinone) activity | 9.99 | 0.00 |
| GO:0003954; NADH dehydrogenase activity | 9.99 | 0.00 | |
| GO:0016655; oxidoreductase activity, acting on NADH or NADPH, quinone or similar compound as acceptor | 9.99 | 0.00 | |
| GO:0008137; NADH dehydrogenase (ubiquinone) activity | 9.86 | 0.00 | |
| GO:0016651; oxidoreductase activity, acting on NADH or NADPH | 5.38 | 0.00 | |
| GO:0048038; quinone binding | 7.82 | 0.00 | |
| 2 (enrichment score, 5.40) | GO:0001539; ciliary or flagellar motility | 7.94 | 0.00 |
| GO:0051674; localization of cell | 7.94 | 0.00 | |
| GO:0048870; cell motility | 7.94 | 0.00 | |
| GO:0006928; cell motion | 7.58 | 0.00 | |
| GO:0003774; motor activity | 8.23 | 0.00 | |
| GO:0019861; flagellum | 4.94 | 0.00 | |
| GO:0009288; flagellin-based flagellum | 5.62 | 0.00 | |
| GO:0044463; cell projection part | 6.58 | 0.00 | |
| GO:0044460; flagellum part | 6.58 | 0.00 | |
| GO:0044461; flagellin-based flagellum part | 6.58 | 0.00 | |
| GO:0009425; flagellin-based flagellum basal body | 7.80 | 0.00 | |
| GO:0042995; cell projection | 2.68 | 0.00 | |
| 3 (enrichment score, 3.01) | GO:0009425; flagellin-based flagellum basal body | 7.80 | 0.00 |
| GO:0030694; flagellin-based flagellum basal body, rod | 8.78 | 0.05 | |
| 4 (enrichment score, 2.34) | GO:0016661; oxidoreductase activity, acting on other nitrogenous compounds as donors | 7.17 | 0.03 |
| GO:0009325; nitrate reductase complex | 8.78 | 0.05 |
a
OB-fold, oligonucleotide/oligosaccharide binding-fold.