TABLE 2.
Primers used in this study
| Primer name | Sequence | Usea |
|---|---|---|
| rsmARHindIII | GCGCAAGCTTCACGCGAATATTTCAGGACAAC | TF |
| rsmAFHindIII | GCGCAAGCTTCGGCAACATCACCACGCTGG | Mutant construction |
| rsmARXbaI | GCGCTCTAGAGCACGGTGATCCTGCAGACC | Mutant construction |
| rsmASOEF | GCGTGAGGAGAAAGGAATGCTGCAT TAATTTTTATCTAATTTTCCCTTTGC | Mutant construction |
| rsmASOER | GCAAAGGGAAAATTAGATAAAAATT AATGCAGCATTCCTTTCTCCTCACGC | Mutant construction |
| algUKOF | GCGCGAGCTCGACAGCAACTCGATGTTCGGTC | Mutant construction |
| algUKOR | GCGCTCTAGAGTCGTACCAGGAAGCCAGCTG | Mutant construction |
| algUTJ1F2 | GCGCCCATGGGAATGCTAACCCAGGAACAGGATCA | Complementation |
| algU HindIIIR | GCGCAAGCTTTCAGGCTTCTCGCAACAAAGGCTGCA | Complementation |
| algRTJ1F2 | GCGCCCATGGGAATGAATGTCCTGATTGTCGATGAC | Overexpression |
| rpoS EcoRIF | GCGCGAATTCGATGGCACTCAAAAAAGAAGGGCC | Mutant construction |
| rpoS HindIIIR | GCGCAAGCTTTCACTGGAACAGCGCGTCACT | Mutant construction |
| rpoS intF | CGTCGCTGACCGGGAGTTCG | PCR check |
| rpoS intR | CATTTATCTACTTAGGCTCACACG | PCR check |
| rsmASDMcheckF | GCCAAGGTTTCCATCGTCGG | PCR check |
| rsmAHAF | TACCCATACGATGTTCCAGATTACGCTTAATTTTTATCTAATTTTCCCTTTGC | HA allele construction |
| rsmAHAR | TTAAGCGTAATCTGGAACATCGTATGGGTAATGGTTTGGCTCTTGATCTTTCTC | HA allele construction |
| rsmASDMAlgUF | CAGAATTCTTCATTCCGGCGGGACTG | SDM |
| rsmASDMAlgUR | CCAAACGGTCAAAAACGACAAAAG | SDM |
| rsmAPE1F | GCGCGGTACCAAGGATCGCGCTCTTGATTTCTGCGGATCCGCCGCCATTTCTT | TF |
| rsmAPE3F | GCGCGGTACCGCTGACAGGCGAAAGGCG | TF/RPA |
| rsmAPE3R | GCGCGGATCCTCACCCAGTATTGACCAGTCC | TF |
| rsmAEcoRIR | GCGCGAATTCACGAGTCAGAATCAGCATTCCTTTC | TF |
| rsmAPE1 | GGCGCGTTGACGCCGATGCGC | Primer extension |
| rsmAPE3 | CACGCGAATATTTCAGGACAACAGTCTG | Primer extension |
| rsmAPE4 | GCGCGATCCTTCACCCAGTATTGACCAGTCC | Primer extension |
| gacAF | GCGCGAGCTCGAGGCGACCTTGCGTCATTC | Mutant construction |
| gacAR | GCGCTCTAGACGGCGATCGCCGAAACCAG | Mutant construction |
| gacASOEF-2 | GCGACGAGGTGCAGCGTGATTGTGAATTCCGCCAGCTAGATGAGCG | Mutant construction |
| gacASOER-2 | CGCTCATCTAGCTGGCGGAATTCACAATCACGCTGCACCTCGTCGC | Mutant construction |
| gacAintF | CCAGGGTGCTTGCGCTTTAC | PCR check |
| gacAintR | CCACGTAGAGAAGCTTGGCC | PCR check |
| retSFSacI | GCGCGAGCTCGAACGTCGCCATCGACGTGC | Mutant construction |
| PA0082FUV5 | GCGCAAGCTTTACACTTTATGCTTCCGGCTCGTATAATGTGTGGAGTCATCCAATATTCATCAATGGC | LF |
| retSRXbaI | GCGCTCTAGAGCAGGTCTGGCTATGCCGG | Mutant construction |
| retSSOEF | GACTTCGCCGTGGTACGGCTTTCCTGAGGGCAGCGACGTGCT | Mutant construction |
| retSSOER | AGCACGTCGCTGCCCTCAGGAAAGCCGTACCACGGCGAAGTC | Mutant construction |
| retSintF | CAAGGTCGAGGCGACCTGGG | PCR check |
| retSintR | GAATAACCGCGTGCGGTTATCC | PCR check |
| lacZScaIF | GCTATGACCATGATTAGTACTGATTCACTGGCCGTC | TLF vector |
| lacZRXhoI | CCCCTCGAGCAGACATGGCCTGCCCGGTTATTA | TLF vector |
| lacZRforTF | GATGTGCTGCAAGGCGATTAAG | SEQ |
| pHERDSF | ATCGCAACTCTCTACTGTTTCTC | SEQ |
| rsmASDMAlgRF | GAATTCGGCAGGAACTTTCATTCCGGC | RPA |
| rsmARPAR | TAATACGACTCACTATAGGGAGAGATAAAAATTAATGGTTTGGCTCTTG | RPA |
a
Abbreviations: TF, transcriptional fusion, SDM, site-directed mutagenesis; TLF, translational fusion, LF, leader fusion, SEQ, sequencing primer; RPA, RNase protection assay.