Table 2.
The most upregulated genes in the ΔccpC strain compared to the levels in the wildtype F2365 strain.
| Gene id | Gene description | log2Fold change | p value |
|---|---|---|---|
| DNA repair | |||
| LMOf2365_1500 | DNA polymerase III, delta subunit | 1.4 | 6.9E-03 |
| LMOf2365_1596 | Bacterial DNA polymerase III alpha subunit (dnaE) | 1.7 | 3.0E-03 |
| LMOf2365_0177 | DNA polymerase III subunit, delta subunit (holB) | 1.9 | 3.0E-03 |
| LMOf2365_1587 | DNA polymerase I: 5′-3′ exonuclease, C-terminal SAM fold (polA) | 1.4 | 6.7E-03 |
| LMOf2365_1417 | Protein RecA bacterial DNA recombination protein (recA) | 2.0 | 7.9E-04 |
| LMOf2365_0005 | DNA replication and repair protein: RecF/RecN/SMC N terminal (recF) | 1.6 | 1.4E-02 |
| LMOf2365_1479 | DNA repair protein: Recombination protein O N terminal (recO) | 1.9 | 2.0E-02 |
| LMOf2365_2682 | Recombination protein: Toprim domain (recR) | 1.8 | 1.9E-02 |
| LMOf2365_1920 | Holliday junction resolvase: Recombination protein U (recU) | 2.0 | 5.8E-03 |
| LMOf2365_1552 | Holliday junction ATP-dependent DNA helicase: HHH domain (ruvA) | 1.2 | 1.3E-02 |
| LMOf2365_1551 | Holliday junction ATP-dependent DNA helicase: N-terminus (ruvB) | 1.3 | 1.0E-02 |
| LMOf2365_1320 | LexA repressor: Peptidase S24-like (lexA) | 2.0 | 3.0E-03 |
| LMOf2365_0001 | Chromosomal replication initiator protein (dnaA) | 1.7 | 4.9E-03 |
| LMOf2365_1924 | Replication and repair (dnaD) | 0.9 | 4.8E-02 |
| LMOf2365_1586 | Formamidopyrimidine-DNA glycosylase HTH domain (mutM) | 1.5 | 2.5E-03 |
| LMOf2365_1422 | DNA mismatch repair protein: MutS domain V (mutS-2) | 1.1 | 1.3E-02 |
| Iron, zinc and manganese metabolism (PerP system) | |||
| LMOf2365_1466 | Zinc ABC transporter ATP-binding protein ZurA (zurA-2) | 1.5 | 3.0E-03 |
| LMOf2365_1464 | Transcriptional regulator ZurR (zurR) | 1.8 | 2.0E-03 |
| LMOf2365_1707 | Peroxide-responsive transcriptional repressor (PerR) (PerR) | 1.7 | 7.2E-03 |
| LMOf2365_1986 | Ferric uptake regulator family (fuR) | 1.9 | 2.2E-03 |
| LMOf2365_1907 | Transcriptional regulator MntR: Iron dependent repressor | 1.7 | 9.0E-03 |
| Protein export | |||
| LMOf2365_1872 | Lipoprotein signal peptidase: Signal peptidase (SPase) II (lspA) | 2.0 | 1.0E-02 |
| LMOf2365_0257 | Protein translocase subunit (secE) | 2.1 | 4.2E-03 |
| LMOf2365_2424 | Probable protein-export membrane protein (secG) | 2.2 | 1.5E-03 |
| LMOf2365_1287 | Signal peptidase IB: Peptidase S24-like (sipX) | 1.9 | 2.3E-03 |
| LMOf2365_1288 | Signal peptidase I: Peptidase S24-like | 1.5 | 1.7E-02 |
| LMOf2365_1289 | Signal peptidase I: Peptidase S24-like | 1.6 | 2.8E-03 |
| Peptidoglycan biosynthesis | |||
| LMOf2365_2499 | UDP-N-acetylglucosamine 1-carboxyvinyltransferase 1: EPSP synthase (3-phosphoshikimate 1-carboxyvinyltransferase) (murA-)1 | 1.5 | 1.1E-02 |
| LMOf2365_1439 | UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain (murB) | 1.9 | 9.0E-04 |
| LMOf2365_1483 | Undecaprenol kinas: Prokaryotic diacylglycerol kinase (dgkA) | 1.5 | 4.6E-03 |
| LMOf2365_2069 | Phospho-N-acetylmuramoyl-pentapeptide-transferase: Glycosyl transferase family 4 (mraY) | 1.6 | 1.1E-02 |
| LMOf2365_1332 | Isoprenyl transferase: Putative undecaprenyl diphosphate synthase (uppS) | 1.8 | 1.2E-02 |
| LMOf2365_0872 | D-alanine--D-alanine ligase: C-terminus | 1.5 | 1.5E-02 |
| LMOf2365_2399 | Peptidoglycan glycosyltransferase: Cell cycle protein | 2.1 | 1.3E-03 |
| Teichoic acid biosynthesis | |||
| LMOf2365_2526 | Alpha-galactosylglucosyldiacylglycerol synthase | 1.4 | 2.8E-03 |
| LMOf2365_2527 | Alpha-monoglucosyldiacylglycerol synthase: Glycosyl transferases group 1 | 1.5 | 1.3E-02 |
| LMOf2365_2491 | Uncharacterized Cell envelope-related transcriptional attenuator | 1.8 | 4.2E-03 |
| LMOf2365_1097 | Teichoic acid poly(ribitol-phosphate) polymerase: Poly(glycerophosphate) glycerophosphotransferase | 1.5 | 1.0E-02 |
| LMOf2365_0979 | Probable undecaprenyl-phosphate N-acetylglucosaminyl 1-phosphate transferase: Glycosyl transferase family 4 | 1.6 | 1.8E-02 |