TABLE 3.
PhoP-like promoters identified by consensus sequence searching, patterns of regulation detected by qPCR, and results of gel shift assays
| Sequence or operon | Sequencea | Genome coordinates | Mg2+ regulatedb | PhoP regulatedb | Gel shift |
|---|---|---|---|---|---|
| Consensus sequence | CGTTCAGNNNNNRTTCAG | ||||
| oprH-phoP-phoQ | CGTTCAGCCCGGGTTCAG | 1276906-1276923 | Yes | Yes | Yesd |
| CGTTCAGGGGCGGTTCAG | 1276928-1276945 | ||||
| pmrH-ugd | CGTTCAGTCTTCATTCAG | 3979746-3979763 | Yes | Yes | Yes |
| CGTTCAGGCAGCATTCAG | 3979789-3979806 | ||||
| PA1343 | CGTTCAGAAATTGTTCAG | 1457051-1457068 | Yes | Yes | Yes |
| CGTTCAGGCCCGATTCAG | 1457073-1457109 | ||||
| PA0921 | CGTTCAGCGATGGTTCAG | 1006780-1006797 | Yes | Yes | Yes |
| PA4457-PA4461 | CGTTCAGCTTGGATTCAG | 4989024-4989041 | No | NTc | NT |
| PA1851 | CGTCCAGGCCTGTTTCAG | 2010955-2010972 | No | NT | NT |
| PA3925 | CGTTCAGACCCTATCCAG | 4400087-4400104 | No | NT | NT |
| PA0918 | CATTCAGGCTGGCTTCAG | 1002608-1002591 | No | NT | NT |
| PA2775-PA2774 | CCTTCACGGATGATTCAG | 3133288-3133271 | No | NT | NT |
| spuABCD | CGTTGAGGCCGTTTTCAG | 334565-334582 | No | NT | NT |
a
Nucleotides that differ from the nucleotides in the consensus sequence are indicated by boldface type. Abbreviations: N = A, C, G, or T; R = A or G.
b
Determined by reverse transcription-qPCR.
c
NT, not tested (no Mg2+ regulation could be demonstrated, and no regulation was observed in array experiments).
d
Promoter regions were tested for binding to PhoP and PmrA. Only the pmrH-ugd promoter fragment bound to both. The other promoters bound only to PhoP and not to PmrA.