Table 1.
Oligonucleotide sequences
| Name | Sequences (5′→3′)a | Use |
|---|---|---|
| SibCKO1 | CCTGATTGACATCGTTGATTCTTTGACCTAATTTAGTGAG TTATGGACAGCAAGCGAA | ΔsibC/ibsC strain |
| SibCKO2 | GATTTACGATGGCAGGGCAGCATGGGGCTGTAAGCTCAGA AGAACTCGTCAAGAAG | ΔsibC/ibsC strain |
| SibDKO1 | GATTGTGTTGTTACTCGTAAGTTTCGCAGCTATGGACAGC AAGCGAACCG | ΔsibD/ibsD strain |
| SibDKO2 | GCCAGGGATATGTGTTAATGAAACCTTCTTTCAGAAGAAC TCGTCAAGAAG | ΔsibD/ibsD strain |
| MscIIC+1 | GTTTGGCCATATGGGGATTTACGATGGCAGGG | pBAD-ibsC |
| IC+ERI | CCGGAATTCAAGGGTAAGGGAGGATTGCTCC | pBAD-ibsC |
| MscIID+1 | GTTTGGCCATAGCGCTCATCAACAATCG | pBAD-ibsD |
| ID+ERI | CCGGAATTCACAAGGGTGAGGGAGG | pBAD-ibsD |
| tacO-F | CGGATCCATAAATGTGAGCGGATAACATTGACATTGTGAGCGG | pAKA |
| tacO-R | CCCAAGCTTGTCGACGACGTCATTATATTGTTATCCGCTCACAATGTC | pAKA |
| AvaIpHM3919 | CCCTCGGGCAGATAAAGAAGACAGTC | pAKA |
| AatIIC-F | GCGACGTCAAGGGTAAGGGAGGATTG | pAKA-SibC |
| Hnd3C-R | CCCAAGCTTGGCTGTAACGGTAAAG | pAKA-SibC |
| AatIID-F | GCGACGTCACAAGGGTGAGGGAG | pAKA-SibD |
| Hnd3D-R | CCCAAGCTTACGGGAAAGCCCCTCCCGA | pAKA-SibD |
| AatIISC+30 | GCGACGTCAGACTGACTGTTAATAAGC | pAKA-SibC(30–141) |
| AatIISC+42 | GCGACGTCAATAAGCGCTGAAACTTATG | pAKA-SibC(42–141) |
| AatIISC+46 | GCGACGTCAGCGCTGAAACTTATGAG | pAKA-SibC(46–141) pAKA-SibC(46–68) pAKA-SibC(46–78) |
| AatIISC+54 | GCGACGTCAACTTATGAGTAACAGTAC | pAKA-SibC(54–141) |
| AatIISC+62 | GCGACGTCAGTAACAGTACAATCAGTATG | pAKA-SibC(62–141) |
| AatIISC+89 | GCGACGTCAGTCGCATCATAACCCTTC | pAKA-SibC(89–141) |
| T51Gf | CTGACTGTTAATAAGCGCGGAAACTTATGAGTAACAG | pAKA-SibC(U51G) |
| T51Gr | CTGTTACTCATAAGTTTCCGCGCTTATTAACAGTCAG | pAKA-SibC(U51G) |
| C87D-R | TGATGAAGCTCGTCATCATACTGATTGTAC | pAKA-SibC87D |
| C87D-F | AACAGTACAATCAGTATGATGACGAGCTTC | pAKA-SibC87D |
| D71C-R | GATGCGACTTGTCATCATACTGATTGTG | pAKA-SibD71C |
| D71C-F | CAACACAATCAGTATGATGACAAGTCGC | pAKA-SibD71C |
| C26D-R | TTAACAGCCAATCGGGAGGAGCAATCCTC | pAKA-SibC26D |
| C26D-F | GCTCCTCCCGATTGGCTGTTAATAAGCTG | pAKA-SibC26D |
| D27C-R | GTCAGTCTCAGAGAGGGGGGAGAAATC | pAKA-SibD27C |
| D27C-F | CTCCCCCCTCTCTGAGACTGACTGTTAA | pAKA-SibD27C |
| D94C-R | AAGGGTTATGATGAAG | pAKA-SibD94C |
| D94C-F | CATCATAACCCTTCTC | pAKA-SibD94C |
| D114C-R | GCTTACAGAAGGAAAGGGTTATGATGAAG | pAKA-SibD114C |
| D114C-F | CCTTTCCTTCTGTAAGCCCTCGCTTCGGTG | pAKA-SibD114C |
| C48D-R | GTTTCGCAGCTTATTAACAGTCAGTCTC | pAKA-SibC48D |
| C48D-F | GTTAATAAGCTGCGAAACTTACGAG | pAKA-SibC48D |
| 1-78-R | CGTTTTATTTCTGATTGTACTGTTACTC | pAKA-SibC(1–78) |
| 1-78-F | GT ACAATCAGAAATAAAACGAAAGGCTC | pAKA-SibC(1–78) |
| 46-68Fu-F | CTGAAACTTATGAGTAACAAAATAAAACGAAAGG | pAKA-SibC(46–68) |
| AatII8-77rB | GCGACGTCAAGGGTAAAGTATGATGACAAG | pAKA-SibC(1–8::77–141) |
| AatII8-99f | GCGACGTCAAGGGTAATAACCCTTCTCC | pAKA-SibC(1–8::99–141) |
| AatII8-90f | GCGACGTCAAGGGTAAGTCGCATCATAAC | pAKA-SibC(1–8::90–141) |
| AatII8-77(M) | GCGACGTCAAGGGTAAAGTAACTACACAAG TCGGTAGTTAACCCTTCTCCTTC | pAKA-SibC(1–8::77–141M3) |
| HndIII8-77 (M) | CCAAGCTTGGCTGTAACGGTAAACGCCAGC CCGAAGACTGGCGTTGAAGGAGAAGG | pAKA-SibC(1–8::77–141M3) |
| AatII8-29rB | GCGACGTCAGGGAGGATTGCTCCTCCCC TGAAATAAAACGAAAGGC | pAKA-SibC(8–29) |
| AatII77-99rB | GCGACGTCAGTATGATGACAAGTCGCAT CATAAATAAAACGAAAGGC | pAKA-SibC(77–99) |
| ERIpHM459 | CCGGAATTCCAAAAGAGTTTGTAGAAACGC | pAKA pAKA-SibC(1–78) pAKA-SibC(46–68) pAKA-SibC(46–78) pAKA-SibC(8–29) pAKA-SibC(77–99) |
| ERI-T7-ibsC | CGGAATTCTTAATACGACTCACTATAGGCAGCATGGGGCTG | Template for in vitro transcription of ibsC |
| ibsC+159 | AAGGGTAAGGGAGGATTGCTCC | Template for in vitro transcription of ibsC |
| ERI-T7-ibsD | CGGAATTCTTAATACGACTCACTATAGGTCAGCAGGGGGCTG | Template for in vitro transcription of ibsD |
| ibsD+163 | AAGGGTGAGGGAGGATTTCTCC | Template for in vitro transcription of ibsD |
| BHI-SP6-SibC | CGGGATCCATTTAGGTGACACTATAGAAGGGTAAGGGAGGATTGC | pUC-SC |
| SibCSmaIERI | CGGAATTCCCGGGTAAAGCCCTCACCGAAG | pUC-SC |
| BHI-SP6-SibD | CGGGATCCATTTAGGTGACACTATAGACAAGGGTGAGGGAGGAT | pUC-SD |
| SibDSmaIERI | CGGAATTCCCGGGAAAGCCCCTCCC | pUC-SD |
| ICBHIibsC(U) | CCGGATCCTGCTGTACTAATTCCCCTTC | ibsC-CAT fusion plasmid |
| ICHd3ibsC(D) | CCCAAGCTTCTCCTTCAAGCCCTCG | ibsC-CAT fusion plasmid |
| ICBHIibsD(U) | CCGGATCCTAAACCCTCTTCCAGG | ibsD-CAT fusion plasmid |
| ICHd3ibsD(D) | CCCAAGCTTTCCTTCTGTAAGGCC | ibsD-CAT fusion plasmid |
| C1d-R | CATAAGTTTCGCAGCTTATTAACAGTCAG | pAKA-SibC1d |
| C1d-F | GTTAATAAGCTGCGAAACTTATGAGTAAC | pAKA-SibC1d |
| C2d-R | CTTACAGAAGGAAAGGGTTATGATGC | pAKA-SibC2d |
| C2d-R | CCTTTCCTTCTGTAAGCCCTCGC | pAKA-SibC2d |
| 5S+90 | GAGACCCCACACTACCATCGG | Northern |
| cat1 | ACGGTGGTATATCCAGTGAT | primer extension |
| cat2 | ATCTCGTCGAAGCTCGGCGG | primer extension |
| C48-50DHr | GATGAAGCTCGTCATCATACTGATTGTAC | Northern |
| NPSC+141 | GGTAAAGCCCTCACCGAAGCGAGGGCTTG | Northern |
| NPSC46-68 | GTTACTCATAAGTTTCAGCGCT | Northern |
| NPSC77-99 | ATGATGCGACTTGTCATCATACT | Northern |
| NPSC8-29 | CAGGGGAGGAGCAATCCTCCCT | Northern |
aRestriction sites are underlined.