Table 2.
List of selected up- and down- regulated genes during alkali adaptation.
| Locus ID | Symbol | Fold | P value | Sub-functional category | Gene/protein name |
| lmo2673 | NA | 5.38 | 0.000 | Adaptations to atypical conditions | Conserved hypothetical protein |
| lmo1074 | NA | -3.92 | 0.007 | Amino acids, peptides and amines | Highly similar to teichoic acid translocation permease protein TagG |
| lmo2250 | arpJ | -3.65 | 0.007 | Similar to amino acid ABC transporter, permease protein | |
| lmo0847 | NA | -3.34 | 0.008 | Similar to glutamine ABC transporter (binding and transport protein) | |
| lmo0997 | clpE | 3.64 | 0.013 | ATP-dependent protease | |
| LMOf2365_2469 | NA | 3.44 | 0.025 | Anions | Phosphate ABC transporter, ATP-binding protein |
| LMOf2365_2470 | NA | 4.19 | 0.002 | Phosphate ABC transporter, permease protein | |
| lmo2495 | NA | 6.03 | 0.000 | Similar to phosphate ABC transporter | |
| LMOf6854_2559 | NA | 8.01 | 0.000 | Phosphate ABC transporter, permease protein | |
| lmo0097 | NA | -6.17 | 0.004 | Aromatic amino acid family | Similar to PTS system mannose-specific, factor IIC |
| lmo2202 | NA | -3.61 | 0.001 | Biosynthesis | Similar to 3-oxoacyl- acyl-carrier protein synthase |
| LMOf2365_2674 | NA | 3.18 | 0.055 | Putative Dihydroxyacetone kinase, Dak1 subunit | |
| LMOf6854_2815 | NA | 5.21 | 0.000 | Dihydroxyacetone kinase, Dak2 subunit, putative | |
| LMOf6854_2814 | NA | 5.79 | 0.000 | Dihydroxyacetone kinase, Dak1 subunit, putative | |
| lmo1389 | NA | -4.31 | 0.006 | Carbohydrates, organic alcohols & acids | Similar to sugar ABC transporter, ATP-binding protein |
| LMOf2365_1877 | NA | -7.45 | 0.003 | Cations and iron carrying compounds | Manganese ABC transporter, ATP-binding protein |
| lmo1848 | NA | -6.13 | 0.003 | Similar metal cations ABC transporter | |
| lmo2087 | NA | 4.03 | 0.004 | Similar to unknown proteins | |
| lmo2507 | ftsE | -4.06 | 0.002 | Cell division | Highly similar to cell-division ATP-binding protein FtsE |
| lmo0582 | iap | -3.9 | 0.004 | P60 extra cellular protein, invasion associated protein iap | |
| lmo1603 | NA | -5.43 | 0.006 | Degradation of proteins, peptides, and glycopeptides | Similar to aminopeptidase |
| lmo2230 | NA | 5.04 | 0.000 | Detoxification | Similar to arsenate reductase |
| LMOf2365_2669 | NA | 3.22 | 0.048 | DNA interactions | Transcriptional regulator, TetR family |
| lmo1398 | recA | 3.12 | 0.001 | DNA replication, recombination, and repair | Recombination protein recA |
| lmo2489 | uvrB | 3.42 | 0.026 | Excinuclease ABC (subunit B) | |
| lmo2676 | NA | 3.48 | 0.022 | Similar to UV-damage repair protein | |
| lmo2717 | cydB | -3.3 | 0.004 | Electron transport | Highly similar to cytochrome D ubiquinol oxidase subunit II |
| lmo1067 | NA | -4.37 | 0.005 | General | Similar to GTP-binding elongation factor |
| lmo2494 | NA | 5.35 | 0.001 | Glycolysis/gluconeogenesis | Similar to negative regulator of phosphate regulon |
| lmo0786 | NA | -4.02 | 0.001 | Other | Similar to acyl-carrier phosphodiesterase and to NAD(P)H dehydrogenase |
| lmo1870 | NA | 4.22 | 0.002 | Similar to alkali phosphatase | |
| lmo0820 | NA | 4.7 | 0.000 | Some similarity to acatyltransferases | |
| lmo1974 | NA | 5.12 | 0.001 | Similar to transcription regulators, (GntR family) | |
| LMOh7858_0838 | NA | 3.24 | 0.104 | PTS | PTS system, mannose/fructose/sorbose family, IIA component subfamily |
| lmo2632 | rplC | -3.44 | 0.003 | Ribosomal proteins : synthesis and modification | Ribosomal protein L3 |
| lmo0250 | rplJ | -3.36 | 0.004 | Ribosomal protein L10 | |
| lmo2631 | rplD | -3.26 | 0.004 | Ribosomal protein L4 | |
| lmo1252 | NA | 5.69 | 0.001 | Role category not yet assigned | Similar to B. subtilis YxkD protein |
| lmo2695 | NA | 4.55 | 0.001 | Sugars | Similar to dihydroxyacetone kinase |