Table 3.
The list of genes under positive natural selection [ω represents the value of dN/dS, p-value: probability value; q-value: false discovery rate (FDR < 10%)].
| Gene | Function | Cluster name | ω | p-value | q-value |
|---|---|---|---|---|---|
| Proteases and hydrolases | |||||
| Carbohydrate-binding protein with metzincin domain (B7D75_11240) | Protease secreted by biofilm of P. aeruginosa | ORTHOMCL2836 | 29.07471 | 0 | 0.000844 |
| Epoxide hydrolase (B7D75_07235) | Virulence factor; hydrolysis of CFTR in lungs | ORTHOMCL5445 | 30.65061 | 0 | 0.000576 |
| Transglutaminase cysteine protease (B7D75_11075) | Role in biofilm formation and dispersal | ORTHOMCL2866 | 23.91616 | 0.000006 | 0.004772 |
| Metallo β-lactamase fold metallo-hydrolase (B7D75_21135) | Degrade beta-lactam antibiotics | ORTHOMCL4367 | 21.31702 | 0.000023 | 0.010209 |
| Outer membrane porin, OprD family (B7D75_11385) | Mutation in oprD mechanism for carbapenem resistance | ORTHOMCL2807 | 18.80725 | 0.000082 | 0.028645 |
| Peptidase M48 (B7D75_26190) | Chaperone and metalloprotease | ORTHOMCL1727 | 17.31162 | 0.000174 | 0.045382 |
| Bacterial transporters | |||||
| LysE family translocator (B7D75_10555) | Lysine exporter | ORTHOMCL2297 | 21.92155 | 0.000017 | 0.00845 |
| Hydrogen peroxide inducible genes activator (LysR family) (B7D75_26850) | Expression of hydrogen peroxide-inducible genes | ORTHOMCL481 | 25.94273 | 0.000002 | 0.002425 |
| High affinity sulfate family inorganic anion transporter (B7D75_00150) | Sulfate transporter | ORTHOMCL1053 | 22.29005 | 0.000014 | 0.00845 |
| Branched-chain amino acid transport system II carrier protein (B7D75_16930) | Transport system for branched-chain amino acids (BCAAs; Ile, Leu, and Val) | ORTHOMCL3746 | 17.34394 | 0.000171 | 0.045382 |
| Amino acid permease (B7D75_21325) | Amino acid transporters | ORTHOMCL4632 | 17.92312 | 0.000128 | 0.039327 |
| Type IV pilus secretin PilQ (B7D75_26155) | Involved in type IV pilus formation, competence for transformation, type III secretion, and type II secretion | ORTHOMCL1798 | 20.61727 | 0.000033 | 0.013371 |
| ProQ activator of osmoprotectant transporter ProP (B7D75_12075) | Transport betaine and other osmoprotectants | ORTHOMCL2663 | 18.45609 | 0.000098 | 0.032009 |
| DNA stabilization and replication | |||||
| Nuclease SbcCD subunit C (B7D75_21985) | Double stranded exo- and endonuclease | ORTHOMCL4686 | 24.01605 | 0.000006 | 0.004772 |
| ATP-dependent DNA helicase (B7D75_08610) | DNA replication | ORTHOMCL2136 | 21.94135 | 0.000017 | 0.00845 |
| Error-prone DNA polymerase (B7D75_21945) | DNA replication | ORTHOMCL4522 | 17.55637 | 0.000154 | 0.044617 |
| Hypothetical protein | |||||
| hmga2e, putative (B7D75_11510) | Unknown | ORTHOMCL2780 | 21.86925 | 0.000018 | 0.00845 |
| Hypothetical protein (B7D75_05465) | Unknown | ORTHOMCL1549 | 38.14207 | 0 | 0.000027 |
| Hypothetical protein (B7D75_14605) | Unknown | ORTHOMCL3251 | 27.56469 | 0.000001 | 0.001347 |
| Terminase (B7D75_05835) | Viral terminase | ORTHOMCL6048 | 20.30993 | 0.000039 | 0.014478 |