Table 2.
Iron-repressed Fur-regulated genes
| Operona | Footprintb | Predicted gene function |
|---|---|---|
| FecI-like sigma factors | ||
| PSPTO_1209-PSPTO_1208 | Y | RNA polymerase sigma-70 family protein/regulatory protein, putative |
| PSPTO_1286-PSPTO_1285 | Y | RNA polymerase sigma-70 family protein/regulatory protein, putative |
| PSPTO_2133 (pvdS) | Y | RNA polymerase sigma-70 family protein |
| TonB system and TonB-dependent receptors | ||
| PSPTO_0069-PSPTO_0068-PSPTO_0067 | Y | TonB system transport protein ExbB/TonB system transport protein ExbD/tonB protein |
| PSPTO_3294 | TonB-dependent siderophore receptor, putative | |
| PSPTO_3462 | TonB-dependent siderophore receptor | |
| PSPTO_3574 | TonB-dependent siderophore receptor, putative | |
| PSPTO_2152-PSPTO_2151 | TonB-dependent siderophore receptor, putative/TonB-dependent siderophore receptor, putative | |
| PSPTO_2605 | Y | TonB-dependent siderophore receptor, putative |
| PSPTO_3692 | TonB-dependent siderophore receptor | |
| PSPTO_1284-PSPTO_1283/PSPTO_1282 | TonB-dependent outer membrane heme receptor/heme oxygenase, putative/hypothetical protein | |
| Other iron transport systems | ||
| PSPTO_0763-PSPTO_0762-PSPTO_0761-PSPTO_0760 | Y | Iron(III) dicitrate transport system, periplasmic iron-binding protein FecB/iron(III) dicitrate transport system, permease protein FecC/iron(III) dicitrate transport system, permease protein FecD/iron(III) dicitrate transport system, ATP-binding protein FecE |
| PSPTO_0314-PSPTO_0315 | Y | Iron ABC transporter, periplasmic iron-binding protein/iron ABC transporter, permease protein |
| Noncoding RNAs | ||
| PSPTO_5657 (prrF2) | Y | ncRNA prrF2 |
| PSPTO_5658 | ncRNA cobalamin-4 | |
| PSPTO_5649 (prrF1) | ncRNA prrF1c | |
| Other | ||
| PSPTO_3157 | Y | σ70/FecR hybrid |
| PSPTO_2146 | Pyoverdine biosynthesis regulatory gene, putative | |
| PSPTO_2134-PSPTO_2135-PSPTO_2136-PSPTO_2137 | Y | Pyoverdine synthetase, thioesterase component/pyoverdine chromophore precursor synthetase/2,4-diaminobutyrate 4-transaminase/MbtH-like protein |
| PSPTO_2145-PSPTO_2144-PSPTO_2143-PSPTO_2142-PSPTO_2141-PSPTO_2140-PSPTO_2139-PSPTO_2138 | Iron-regulated membrane protein, putative/hypothetical protein/hypothetical protein/hypothetical protein/cation ABC transporter, periplasmic cation-binding protein/cation ABC transporter, ATP-binding protein/cation ABC transporter, permease protein/ABC transporter, periplasmic substrate-binding protein, putative | |
| PSPTO_4159 | Y | Bacterioferritin-associated ferredoxin |
| PSPTO_4366 | Iron-regulated protein A, putative | |
| PSPTO_4923 | Azurin | |
| PSPTO_1456-PSPTO_1457 | Multicopper oxidase/cytidine/deoxycytidylate deaminase family protein | |
| PSPTO_0426-PSPTO_0425-PSPTO_0424 | Peptidase, M16 family/hypothetical protein/methyltransferase, putative | |
| PSPTO_3122-PSPTO_3121-PSPTO_3120-PSPTO_3119 | 6-Phosphogluconate dehydrogenase/glucose-6-phosphate 1-dehydrogenase/Cof-like hydrolase family protein/glycosyl hydrolase, family 15 | |
| PSPTO_1915-PSPTO_1916 | Bacterial transferase, hexapeptide repeat protein/3-oxoacyl-(acyl carrier protein) synthase III, putative | |
| PSPTO_5310 | Glutamine synthetase | |
| PSPTO_4381 | Hypothetical protein | |
| PSPTO_4580 | Hypothetical protein | |
| PSPTO_4462-PSPTO_4461-PSPTO_4460-PSPTO_4459 | Hypothetical protein/fumarate hydratase, class II/hypothetical protein/superoxide dismutase, Mn | |
| PSPTO_3596-PSPTO_3597-PSPTO_3598-PSPTO_3599 | Y | Hypothetical protein/hypothetical protein/dyp-type peroxidase family protein/hypothetical protein |
| PSPTO_1210-PSPTO_1211-PSPTO_1212 | Y | Hypothetical protein/hypothetical protein/hypothetical protein |
| PSPTO_4368-PSPTO_4369 | Lipoprotein, putative/lipoprotein, putative | |
| PSPTO_4367-PSPTO_4368-PSPTO_4369 | Lipoprotein, putative/lipoprotein, putative/lipoprotein, putative |
a
Operon predictions determined by VIMSS (see Materials and Methods).
b
Footprint detected by nonradioactive DNase I footprint assay (indicated with “Y”); blank cells indicate that targets were not tested.
c
Not present on microarray; iron-dependent differential expression determined independently (data not shown).