Table 2.
PCR primers used in this study
| Name | Sequence | Purpose |
|---|---|---|
| WAB1 WAB2 |
5'-GAGAATTCACCACATGGAACATCTGCTG-3' 5'-GAAGATCTGGGAGCACGCAACTGAG-3' |
Forward and reverse primers for amplifying 1.4 kbp upstream arm used in knockout of sgcR3 |
| WCD1 WCD2 |
5'-AAGATCTCTGATCGGCAAGTACGGAGAC-3' 5'-AAAGCTTGGTGACAGTTCCGAGGAGGTT-3' |
Forward and reverse primers for amplifying 1.4 kbp downstream arm used in knockout of sgcR3 |
| H1 H2 |
5'-CAGAATTCTCTCCTACGCCCTGCTCATC-3' 5'-ACTCTAGAAGAACCGCTCGGCCTGTC-3' |
Forward and reverse primers for amplifying 2,539 bp sgcR3 including its native promoter |
| sgcR3_FOR sgcR3_REV |
5'-GCATATGGCGGCACACGACGTGAG-3' 5'-AGGATCCCAGCTCCCCTCCTGGGAG-3' |
Forward and reverse primers for amplifying 1,188 bp sgcR3 coding region |
| P17 P18 |
5'-ATGGATCCGCCCCTCGCTCATTGTCG-3' 5'-ATGAATTC CGGATCGGATGTGCTGGTCT-3' |
Forward and reverse primers for amplifying 2,461 bp sgcR1R2 including its native promoter |
| hrdBRT1 hrdBRT2 |
5'-TGGTCGAGGTCATCAACAAG-3' 5'-TGGACCTCGATGACCTTCTC-3' |
Forward and reverse primers used for the detection of hrdB transcripts |
| R1RT1 R1RT2 |
5'-GAAAAGTGACTCTGCCCAACGC-3' 5'-CGCTGCACATGGGAACGATC-3' |
Forward and reverse primers used for the detection of sgcR1 transcripts |
| R2RT1 R2RT2 |
5'-ACCACGAACACCATCGAGGAC-3' 5'-CGGAAGATGCGGGTGAAATG-3' |
Forward and reverse primers used for the detection of sgcR2 transcripts |
| R3RT1 R3RT2 |
5'-GTGGGCGAACGGGAGACGGT-3' 5'-TGCCGAGGGCCGATCAGAGG-3' |
Forward and reverse primers used for the detection of sgcR3 transcripts |
| A1RT1 A1RT2 |
5'-CAGAACATATTCAAGGACTGGC-3' 5'-CACTTGTACTGTCGGGTGGTT-3' |
Forward and reverse primers used for the detection of sgcA1 transcripts |
| C4RT1 C4RT2 |
5'-CTGTGGCTACGGACGAGATTG-3' 5'-CCGAACAGAACATCCCCATCT-3' |
Forward and reverse primers used for the detection of sgcC4 transcripts |
| sgcA1p_FOR_F sgcA1p_REV |
5'-CAGCTGGAGTACGCGATGG-3' 5'-CGACAATGGCGACCTC TTTG-3' |
Forward and reverse primers for amplifying 438 bp upstream of sgcA1 |
| sgcB1p_FOR_F sgcB1p_REV |
5'-GAGGGGTTTTGAGGGGTGAA-3' 5'-GATAGGGGTCGGGGGACATC-3' |
Forward and reverse primers for amplifying 496 bp upstream of sgcB1 |
| sgcC1p_FOR_F sgcC1p_REV |
5'-GGTGCAACACCGCAGATCC-3' 5'-GAGCTGCGCGGAAGGAAG-3' |
Forward and reverse primers for amplifying 481 bp upstream of sgcC1 |
| sgcD2p_FOR_F sgcD2p_REV |
5'-CCTGGAACCATCCGCGAAAC-3' 5'-CGGTCGATCACCAGCACTTC-3' |
Forward and reverse primers for amplifying 448 bp upstream of sgcD2 |
| sgcKp_FOR_F sgcKp_REV |
5'-AGGATCATCGTCCCGTCTC-3' 5'-GAGCCAGTCGAACGACTCCA-3' |
Forward and reverse primers for amplifying 471 bp upstream of sgcK |
| R1R2p_FOR_F R1R2p_REV |
5'-ACGATCGTGTCCGCGTAGG-3' 5'-AACGATCGATTCCGTTCAGG-3' |
Forward and reverse primers for amplifying 455 bp upstream of sgcR1R2 |
| R3p_FOR_F R3p_REV |
5'-GCCCACGCCCTCTGATCG-3' 5'-CGGGACCATGCTCCGTGTA-3' |
Forward and reverse primers for amplifying 467 bp upstream of sgcR3 |
| cagApEMSA1 cagApEMSA2 |
5'-CACGCTCTGTCCGTCACTCA-3' 5'-ATCCGCTCCCGAAGGTGG-3' |
Forward and reverse primers for amplifying 429 bp upstream of cagA |
Restriction endonuclease recognition sequences introduced by these oligonucleotides are bold.