TABLE 3.
Oligonucleotides
| Primer | Sequence (5′→3′) | Reference, source, or use (reference) |
|---|---|---|
| CD1420qF | 5′-AAGAAACTCCCTGATAATATTGCTAA | 13 |
| CD1420qR | 5′-ACATTCCAATAGCTTGTAGTATCTTT | 13 |
| EBSu | 5′-CGAAATTAGAAACTTGCGTTCAGTAAAC | Sigma-Aldrich |
| oMC44 | 5′-CTAGCTGCTCCTATGTCTCACATC | Forward primer for rpoC (34) |
| oMC45 | 5′-CCAGTCTCTCCTGGATCAACTA | Reverse primer for rpoC (34) |
| oMC309 | 5′-GGAGAATACAGAGATTTGATTGATTC | Forward primer for CD2492::erm verification |
| oMC317 | 5′-AAAAGCTTTTGCAACCCACGTCGATCGTGAAGTGATCTTAATCGTGCGCCCAGATAGGGTG | IBS for CD2492-targeted intron |
| oMC318 | 5′-CAGATTGTACAAATGTGGTGATAACAGATAAGTCTTAATCTCTAACTTACCTTTCTTTGT | EBS1 for CD2492-targeted intron |
| oMC319 | 5′-CGCAAGTTTCTAATTTCGATTATCACTCGATAGAGGAAAGTGTCT | EBS2 for CD2492-targeted intron |
| oMC338 | 5′-TCCCATTTGCCTTTATTTGAACTTGA | Reverse primer for CD2492::erm verification (39) |
| oMC339 | 5′-GGGCAAATATACTTCCTCCTCCAT | Forward primer for sigE (CD2643) (33) |
| oMC340 | 5′-TGACTTTACACTTTCATCTGTTTCTAGC | Reverse primer for sigE (CD2643) (33) |
| oMC2910 | 5′-GACCACACCCGTCCTGTGGATCCCCATCTCTATGTAATATTTTTCATATTAAAACTGATTTC | Forward primer for PCD1421 |
| oMC2911 | 5′-CTTTAAACATATTAATTTCTCCAAAATAAAATACTTTGTACTGGTATTCCTCCATAAGATACTTTAAATTTTG | Reverse primer for PCD1421 |
| oMC2912 | 5′-CAAAATTTAAAGTATCTTATGGAGGAATACCAGTACAAAGTATTTTATTTTGGAGAAATTAATATGTTTAAAG | Forward primer for dccA (CD1420) |
| oMC2913 | 5′-CCGCCGCAAGGAATGGTGCATGCTTAATAATCATTTTTATCAAATTTTTTCTTGTTTTTCTCC | Reverse primer for dccA (CD1420) |
| R838 | 5′-GTAAAACGACGGCCAGT | Reverse screening primer for pMSR |
| R1832 | 5′-TATTTCGATGCCCTGGACT | Forward screening primer for pMSR |
| R2743 | 5′-GTGTTATCAATTGCACTACTCATGG | Forward screening primer for pMSR0 |
| R2744 | 5′-GTTGAACCATTAGCTAAGGATTCAG | Reverse screening primer for pMSR0 |
| R2926 | 5′-CTGATATAGGAAAATCTTTAATAGAGAAG | Forward screening primer for dccA chromosomal deletion |
| R2927 | 5′-TCCATGAACTCATCATATGTGTATCC | Reverse screening primer for dccA chromosomal deletion |
| R2928 | 5′-TTCGGATCCTCTAGAGTCGACTGCAAGATATGAAAAAACTAAGAGC | Forward primer for upstream fragment of dccA deletion construct |
| R2929 | 5′-CAAATTTTTTCTTGTTTTTCTCCATATTAATTTCTCCAAAATAAAATACTTTGTACTAG | Reverse primer for upstream fragment of dccA deletion construct |
| R2930 | 5′-GTATTTTATTTTGGAGAAATTAATATGGAGAAAAACAAGAAAAAATTTGATAAAAATG | Forward primer for downstream fragment of dccA deletion construct |
| R2931 | 5′-ATGTCTGCAGGCCTCGAGGAGTATGTACTATCATCATTGCTACC | Reverse primer for downstream fragment of dccA deletion construct |