Table 1.
Primers used in this study.
| Primer | Sequence (5′→3′)* | Purpose |
|---|---|---|
| mubKupF | GAGTATATCATTCAATATATCCTG | Comparison of IFDC2 with ePheS variants to create IFDC3 |
| mubKupR | TGCTATGAGTGTTATTGTTGCTCGGCATCCCTCCCACCTAAATATGATTC | |
| mubKdnF | TATTAGGTATACTACTGACAGCTTCTGAAATGAGTGAAAAGGAAATGTCA | |
| mubKdnR | GACTCGAATTCCATGTGTTTTCTCC | |
| IFDCF | CCGAGCAACAATAACACTCATAGCA | |
| IFDCR | GAAGCTGTCAGTAGTATACCTAATA | |
| IFDC3-T260SF | GCGTCCTTCTTATTTCCCATTTTCTGAGCCTTCTGTTGAAGTCGATG | |
| IFDC3-T260SR | CATCGACTTCAACAGAAGGCTCAGAAAATGGGAAATAAGAAGGACGC | |
| IFDC3-T260AF | GCGTCCTTCTTATTTCCCATTTGCTGAGCCTTCTGTTGAAGTCGATG | |
| IFDC3-T260AR | CATCGACTTCAACAGAAGGCTCAGCAAATGGGAAATAAGAAGGACGC | |
| mub156dnF | GAATCATATTTAGGTGGGAGGGATGGGGGCCGCAGAAGCGGAAGGATTAAAAG | Comparison of different direct repeat lengths for deleting 156 bp within the mubK gene of the mutanobactin gene locus |
| mub156dnR | TACTAAATGGTAGCCAATTTGATAG | |
| DR-R | CATCCCTCCCACCTAAATATGATTC | |
| DR25IFDC-R | CATCCCTCCCACCTAAATATGATTCGAAGCTGTCAGTAGTATACCTAATA | |
| DR100-F | TATTAGGTATACTACTGACAGCTTCCATAAAGTAAGTTCTATTTATTCTG | |
| DR200-F | TATTAGGTATACTACTGACAGCTTCTGGTTGCTTAATGGAATTTCTTGAA | |
| DR400-F | TATTAGGTATACTACTGACAGCTTCACCAGTTGCTCGCGAACCACCAAGA | |
| mub625dnF | GAATCATATTTAGGTGGGAGGGATGTTGTCTTGTCTTTAGTAGCTGGCAT | Comparison of different deletion lengths within the mutanobactin gene locus |
| mub2.5dnF | GAATCATATTTAGGTGGGAGGGATGAGAAAACACATGGAATTCGAGTCAA | |
| mub10dnF | GAATCATATTTAGGTGGGAGGGATGGTCAAAAGTTTTGACCATGTTGTTCT | |
| mub4dnF | GAATCATATTTAGGTGGGAGGGATGAATAACTATGGGAAGCCAAGAGTAA | |
| ComYATAAupF | CCAGGCATTCTTATGGATATTGCCG | Creation of markerless comYA-TAA nonsense mutation |
| ComYATAAupR | TGCTATGAGTGTTATTGTTGCTCGGTTAAACCATAAAACCTCCCATCTTATC | |
| ComYATAADR-F | TATTAGGTATACTACTGACAGCTTCTGATACCCCTTTTCGTTCCAAATG | |
| ComYATAADR-R | CGGCAATGATTTTTCTACCTAATTTTTAAACCATAAAACCTCCCATCTTATC | |
| ComYATAAdnF | AAATTAGGTAGAAAAATCATTGCCG | |
| ComYATAAdnR | CTATAATTTCTGTTAAATTAAAACC | |
| ComYATAGDR-R | CGGCAATGATTTTTCTACCTAATTTCTAAACCATAAAACCTCCCATCTTATC | Creation of markerless comYA-TAG nonsense mutation |
| ComYATAGupR | TGCTATGAGTGTTATTGTTGCTCGGCTAAACCATAAAACCTCCCATCTTATC | |
| ComYATGADR-R | CGGCAATGATTTTTCTACCTAATTTTCAAACCATAAAACCTCCCATCTTATC | Creation of markerless comYA-TGA nonsense mutation |
| ComYATGAupR | TGCTATGAGTGTTATTGTTGCTCGGTCAAACCATAAAACCTCCCATCTTATC | |
| comYBTAAupF | GAGAATAGGGAATGAAAGGAGGTTC | Creation of markerless comYB-TAA nonsense mutation |
| ComYBTAAupR | GCTATGAGTGTTATTGTTGCTCGGTTATCGCATTTTCTTTGTGTATATTTC | |
| comYBTAADR-F | TATTAGGTATACTACTGACAGCTTCGTGGAACAAACAAATTTATGACCTT | |
| comYBTAADR-R | CCAAATGCAGACCATTCAACAACCCTTATCGCATTTTCTTTGTGTATATTTC | |
| ComYBTAAdnF | TAAGGGTTGTTGAATGGTCTGCATTTG | |
| comYBTAAdnR | CTTTAACCACGGCAGAACCGCCAG | |
| comYCupF | CACTGAAGGAGAAGCACAAGCAG | Creation of markerless comYC-TAA nonsense mutation |
| ComYCTAADR-R | CGTACACTGACTCTCTTGATCTTTTACATTATAAATTAACCTCCATATTCTG | |
| comYCTAAdnF | TAAAAGATCAAGAGAGTCAGTGTACG | |
| ComYCTAAupR | CTATGAGTGTTATTGTTGCTCGGTTACATTATAAATTAACCTCCATATTCTG | |
| comYCDR-F | TATTAGGTATACTACTGACAGCTTCAATATGGAGAAGTAAAGTCAAAATTG | |
| comYCTAAdnR | CAGATACACTACCAGCAATGACAAG |
*
Complementary sequences used for OE-PCR are shown in bold, while mutagenic sequences used to introduce missense and nonsense mutations are underlined in italics.