TABLE 2.
Gene clusters of interest from the Anvi’o pangenome subset that were present in iron-oxidizing Gallionella and Sideroxydans, but absent in nitrite-oxidizing Ca. Nitrotoga.
| COG20 Category | COG20 Function | Gene Cluster ID |
|---|---|---|
| Cell wall/ membrane/ envelope biogenesis | Lipid carrier protein ElyC involved in cell wall biogenesis, DUF218 family (ElyC) | GC_00001120 |
| ABC-type lipoprotein export system, ATPase component (LolD) | GC_00000969 | |
| ADP-heptose synthase, bifunctional sugar kinase/ adenylyltransferase (RfaE) | GC_00001059, GC_00001084 | |
| ADP-heptose:LPS heptosyltransferase (RfaF) | GC_00001100 | |
| Glycosyltransferase involved in cell wall biosynthesis (RfaB) | GC_00001179 | |
| Outer membrane protein TolC | GC_00000022, GC_00000920 | |
| Glutamate racemase (MurI) | GC_00001047 | |
| Murein L,D-transpeptidase YafK | GC_00001108 | |
| Cytoskeleton | Cytoskeletal protein CcmA, bactofilin family | GC_00000987 |
| Energy production and conversion | Na+ translocating ferredoxin: NAD+ oxidoreductase RNF, RnfA | GC_00000042 |
| Na+ translocating ferredoxin: NAD+ oxidoreductase RNF, RnfB | GC_00001082 | |
| Na+ translocating ferredoxin: NAD+ oxidoreductase RNF, RnfC | GC_00001069 | |
| Na+ translocating ferredoxin: NAD+ oxidoreductase RNF, RnfD | GC_00001055 | |
| Na+ translocating ferredoxin: NAD+ oxidoreductase RNF, RnfE | GC_00001071 | |
| Na+ translocating ferredoxin: NAD+ oxidoreductase RNF, RnfG | GC_00001096 | |
| Ferredoxin (Fdx) | GC_00001052 | |
| Cytochrome c-type biogenesis protein CcmH/NrfF | GC_00001058 | |
| Cytochrome c-type biogenesis protein CcmH/NrfG | GC_00001078 | |
| Signal transduction mechanisms | PAS domain | GAF domain | HAMP domain | Cyclic di-GMP metabolism protein | GC_00000006 |
| cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases | Small-conductance mechanosensitive channel MscK | GC_00001152 |