TABLE 2.
Primers used in this study
| Primer | Sequence (5′-3′)a | Location (accession no. NC_002951) or reference |
|---|---|---|
| asp23probe+ | ATGACTGTAGATAACAATAAAGC | 27 |
| asp23probe− | TTGTAAACCTTGTCTTTCTTGG | 27 |
| clfAprobe+ | CGTGGCTTCAGTGCTTGTAG | 880693-880712 |
| clfAprobe− | GAGTTGTTGCCGGTGTATTAGC | 881015-881036 |
| gyr864 | GTACGATTTAATACCGCCCTCATA | 29 |
| gyr297 | TTAGTGTGGGAAATTGTCGATAAT | 5199-5222 |
| gyr570 | AGTCTTGTGACAATGCGTTTACA | 5450-5472 |
| gyrFL1 | ATTTTAACTGTTTTACATGCTGGTGGTAA-FL | 72 |
| gyrLC1 | LCred640-TTTGGCGGTGGCGGATACA-ph | 72 |
| 2Hyb-rsbU+ | atcgaattcaTGGAAGAATTTAAGCAAC | 2123847-2123864 |
| 2Hyb-rsbU− | atctctgcagTTAATTTACTCTTTTTATAATC | 2122864-2122885 |
| 2Hyb-rsbV+ | atcgaattcATGAATCTTAATATAGAAACAACC | 2122721-2122744 |
| 2Hyb-rsbV− | atctctgcagTTATTCGACCTCCGTTCCTTC | 2122418-2122438 |
| 2Hyb-rsbW+ | atcgaattcATGCAATCTAAAGAAGATTTTATCG | 2122392-2122416 |
| 2Hyb-rsbW− | atctctgcagTTAGCTGATTTCGACTCTTTCG | 2121937-2121958 |
| 2Hyb-sigB+ | atcgaattcaTGGCGAAAGAGTCGAAATCAGC | 2121940-2121961 |
| 2Hyb-sigB− | atctctgcagCTATTGATGTGCTGCTTCTTG | 2121192-2121212 |
| rsbUpe+ | GCTGAATGCAGTAGCTCACC | 2124226-2124245 |
| rsbUpe− | CGTTAAACTTTCATCAATTAAACCC | 2123815-2123839 |
| rsbUprobe+ | GACGTTAAACTTAACGCGTG | 2123685-2123704 |
| rsbUprobe− | GAACAATATCTTGTGGGTGC | 2122950-2122969 |
| rsbU-RBSBamHI+ | gcggatccGAAGTGAGGAGGCAACTAATCaTGGAAGAATTTAAGC | 2123857-2123886 |
| rsbVpe− | CGTAAAATTTATCTTGAGTGG | 2122702-2122722 |
| rsbVpe+ | CGGATGGTGTGACTGAAGC | 2123039-2123057 |
| rsbWKpnl+ | gaaggtaccGAGGTCGAATAACATGC | 2122413-2122429 |
| rsbWprobe+ | CGAAATGCGCGTGCCAGC | 2122376-2122393 |
| rsbWprobe− | GTCATACTGATTGTCACACC | 2121995-2122014 |
| sigBFL2 | GGACAAAGTTATAATGCGTTAAGTGT-FL | 2121469-2121494 |
| sigBHindlll− | tatcataagcttcctACAAATTCTATTGATGTGCTGC | 2121185-2121206 |
| sigBLC2 | LCred640-GATCATTCCATTGAAGCTGATAAA-ph | 2121444-2121467 |
| sigBp2Kpnl+ | cggatccGTTTAGGGCTGAATGCAGTAGC | 2124231-2124252 |
| sigBp2Ncol− | cttccatggTTAGTTGCCTCCTCACTTCCC | 2123868-2123888 |
| sigBprobe+ | CAGCTAATGAAGTTTCACCTG | 2121923-2121943 |
| sigBprobe− | CTCTGAAGTCGTGATACATGC | 2121232-2121252 |
| sigB3368 | TAAACCGATACGCTCACCTGT | 2121261-2121281 |
| sigB2922 | TTGAACGGAAGTTTGAAGC | 2121709-2121727 |
| sigB3232 | CATCTTGTTGCCCCATAATA | 2121398-2121417 |
| sa2053EcoRI− | gcGAATTCAAACTTTGCAGAT | 2120042-2120060 |
| sa2058probe+ | CTGGTAGGATTAATAAAGCG | 2124419-2124438 |
| sa2058probe− | GTGAGCTACTGCATTCAGCC | 2124227-2124246 |
| sa2059pe− | GCTTCGTTCGCTAGGGAGAG | 2124644-2124663 |
| sa2059pe+ | CCTATTGGATATGCAGATGGC | 2125117-2125137 |
| TermXbaI+ | ggcaatctAGAAATTACAAGAAGCAGC | 2121202-2121220 |
| T7-gyr | taatacgactcactatagggagATTATGGTGCTGGGCAAATACA | 5098-5119 |
| T7-sigB2747 | taatacgactcactataAAAGAACACCAAGAAAATAAG | 2121882-2121902 |
a
Lowercase letters represent nucleotide additions. FL, fluorescein; LCred640, LightCycler-Red 640-N-hydroxysuccinimide ester; ph, 3′-phosphate.