Table S4.
Oligonucleotides used in this study
| Oligonucleotides | Sequence, 5′ to 3′* | Restriction site | Detected RNA | Amplified RNA |
| Cloning primers | ||||
| catsac-F | CGACTCACTATAGGGCGAATTGGGCC | |||
| catsac-R | CATATGCCACCGACCCGAGCAAAC | |||
| comElacZ-P1 | CGTTGTATATTAATCATCGAAGCGTG | |||
| comElacZ-P4 | GCGGTTGTTTCTCCGATGAGAGTAC | |||
| LA51_up-lppnc0692-F | GGTTAGCACTCGTCAATCAC | |||
| LA52_up-lppnc0692-R-tail-maz | GGCCCAATTCGCCCTATAGTGAGTCGAAAATAAATATCTCATACTC | |||
| LA53_down-lppnc0692-F-tail-maz | GGGTTTGCTCGGGTCGGTGGCATATGCCTGAAATCCTGACAAGAGC | |||
| LA54_down-lppnc0692-R | GCCGGATTGCATCATTACCC | |||
| LA55-up-lppnc0692-R+tail LA56 | TAGAGAGCTCTTGTCAGGATTTCAGGTCTCATACTCCACTAATTAATG | |||
| LA56-down-lppnc0692-F | CCTGAAATCCTGACAAGAGCTCTCTA | |||
| LA61_rocR-F-NotI | GTAAGCGGCCGCCTCATTGTGATGCGGGAGAG | NotI | ||
| LA62_rocR-R-XmaI | CTTACCCGGGGCTCTTGTCAGGATTTCAGG | XmaI | ||
| LA68_RocRbox_m3-F | CTCTGGAACGAGCCGTTTAGTttAACAATTAGGAGAAATTTATG | |||
| LA69_RocRbox_m3-R | CATAAATTTCTCCTAATTGTTaaACTAAACGGCTCGTTCCAGAG | |||
| LA70_RocRbox_m4-F | CTCTGGAACGAGCCGTTTAGTCCttCAATTAGGAGAAATTTATG | |||
| LA71_RocRbox_m4-R | CATAAATTTCTCCTAATTGaaGGACTAAACGGCTCGTTCCAGAG | |||
| LA72_RocRbox_m5-F | CTCTGGAACGAGCCGTTTAGctacACAATTAGGAGAAATTTATG | |||
| LA73_RocRbox_m5-R | CATAAATTTCTCCTAATTGTgtagCTAAACGGCTCGTTCCAGAG | |||
| LA79_RocR_m4-R | ACACATAGCAAGTCCttCCTCGCAAAATAAATATC | |||
| LA80_RocR_m4-F | GATATTTATTTTGCGAGGaaGGACTTGCTATGTGT | |||
| LA81_up-rocR-F | TGGGCTTGAAGGCGATCAAC | |||
| LA82_down-rocR-F-tail-maz | GGGTTTGCTCGGGTCGGTGGCATATGTCCTAAAACCCTGACATGAA | |||
| LA85_RocR_m3-R | ACACATAGCAAGTttAACCTCGCAAAATAAATATC | |||
| LA86_RocR_m3-F | GATATTTATTTTGCGAGGTTaaACTTGCTATGTGT | |||
| LA87-up-rocR-R+tail LA88 | TCCTAAAACCCTGACATGAACTCTCT | |||
| LA88-down-rocR-F | TCCTAAAACCCTGACATGAACTCTCT | |||
| LA91_RocR_m5-R | ACACATAGCAAGctacACCTCGCAAAATAAATATC | |||
| LA92_RocR_m5-F | GATATTTATTTTGCGAGGTgtagCTTGCTATGTGT | |||
| lpp0148_P1 | GCCGTTTTAAATCGGCCAGAAAG | |||
| lpp0148_P4 | CTTCCCCCTAAAAATCAGGATGTC | |||
| lpp0148pX3_F | CTCTGCGGCCGCATTTTGCTAATTGGATACAAACCAAAAG | NotI | ||
| lpp0148pX3_R | ATCACCCGGGTTACTCTGTTGTTTCCTTTTTATCTTCTG | XmaI | ||
| lpp0149pX3_R | ATCACCCGGGCTAAGGTTGTTTTAAAATCATAAAGTAAGC | XmaI | ||
| lpp0148RM_F | CAATAGACTAAACACAATAAGGGTACCAG | |||
| lpp0148RM_P2 | TCTGGTACCCTTATTGTGTTTAGTCTATTG | |||
| lpp0148RM_P3 | GAACTAAGGAGGATATTCATATGGACCATGGCTGTTTATTTCTCCATTATGGGCTG | |||
| lpp0148RM_R | GGAACTTCGAAGCAGCTCCAGCCTACACAATCTGCTGAAAATAATGTCGCTATTCGC | |||
| MazF-R | CATATGCCACCGACCCGAGCAAACCCGAAGAAGTTGTCCATATTGGCCAC | |||
| MazFk7-F | CGACTCACTATAGGGCGAATTGGGCCGCTTTCCAGTCGGGAAACCTG | |||
| pKD4_P1 | GATTGTGTAGGCTGGAGCTGCTTCG | |||
| pKD4_P2 | GCCATGGTCCATATGAATATCCTCC | |||
| proQ15b-F | CCGGATTAATATGAGAAAGCAGGCGCTGCAC | AseI | ||
| proQ15b-R | AGCCGGATCCTTACTCTGTTGTTTCCTTTTTCTCTTCTG | BamHI | ||
| rocc_paris_pet47b+_fwd_1 | CTAGTCCCCGGGATGAGAAAGCAGGCGCTG | SmaI | ||
| rocc_paris_pet47b+_rev_230 | GACTAGGCGGCCGCTTACTCTGTTGTTTCCTTTTTATCTTCT | NotI | ||
| rocc-pgex6p1-fwd_1 | CTAGTCGGATCCATGAGAAAGCAGGCGCT | BamHI | ||
| rocc-pgex6p1-rev_126 | GACTAGGCGGCCGCTTACTTTTCCACGCGTTTTTTAATTTTC | NotI | ||
| Probes for Northern blot (biotinylated in 5′) | ||||
| comEA-NB2 | CTACAAAACGCTGCCCTATACCCTTGACTTCCGCAAGCTCTTCCAGAG | comEA | ||
| LA59_rocR-small-NB | TGTGTCGCCAATTGACCCAGTGGAATGACACATAGCAAGTCCAACCTC | RocR | ||
| RT-qPCR primers | ||||
| lpp0872-RT-F2 | CGGATGTGTATTCTTTAACAGGC | comEA | ||
| lpp0872-RT-R2 | GCTGCCCTATACCCTTGACT | comEA | ||
| lpptmRNA-RT-F1 | CCGCTTATCGGTATCGAATC | tmRNA (control) | ||
| lpptmRNA-RT-R1 | CGCAAGTCCTCTGCCTTTAG | tmRNA (control) |
*
Relevant restriction sites are underlined. The RocR box sequence is written in bold, with the nucleotides introducing mutations in lowercase. The seed sequence of RocR is highlighted in gray, with the nucleotides introducing mutations in lowercase. The notation Pxxx is used to designate the Promoter of the gene xxx. For transcriptional fusion, an underscore (_) is used (e.g., comEA_gfp).