TABLE 2.
Primers used in this study
| Primer or purpose | Oligonucleotide sequence (5′–3′) |
|---|---|
| Mutagenesis | |
| PV4-crp1_5O | 5′-GTGAGCTCCTGTCTACATGGAGGTGGCC-3′ |
| PV4-crp1_5I | 5′-CAAAAGCACTCTGATCCATGAGATTGGTCAGATCGTGG-3′ |
| PV4-crp1_3I | 5′-CCACGATCTGACCAATCTCATGGATCAGAGTGCTTTTG-3′ |
| PV4-crp1_3O | 5′-GTGAGCTCCTGCACGGCAAACAGGGCCAG-3′ |
| PV4-crp1_lf | 5′-GCGTTCGACCCAGTTGGCAC-3′ |
| PV4-crp1_lr | 5′-GCGTTCGACCCAGTTGGCAC-3′ |
| PV-4-crp2-3O | 5′-GTGAGCTCGCTCAAGGCTATCACTAGTC-3′ |
| PV-4-crp2-3I | 5′-GACTCGCCGATGATCCCTTAGGTGCGCCCCTCGCGCAC-3′ |
| PV-4-crp2-5I | 5′-GTGCGCGAGGGGCGCACCTAAGGGATCATCGGCGAGTC-3′ |
| PV-4-crp2-5O | 5′-GTGAGCTCGGACTATCTCACTGGGCTATG-3′ |
| PV4-nirK_5O | 5′-AGAGCTCTTGTCAGGAAGACAGGCGTAG-3′ |
| PV4-nirK_5I | 5′-TCAGGTTGTCATCCCACTCGACGACGTTGCTGATCGACATT-3′ |
| PV4-nirK_3I | 5′-AATGTCGATCAGCAACGTCGTCGAGTGGGATGACAACCTGA-3′ |
| PV4-nirK_3O | 5′-AGAGCTCGCGAGCGATAGGGGTGATAG-3′ |
| PV4-nirK_lf | 5′-GAGTTCGATGTGTTGGCGAC-3′ |
| PV4-nirK_lr | 5′-ACTCGTTGACCAGAGTGACG-3′ |
| qRT-PCRa | |
| QRT-napC-F | 5′-TTACCTTAGGCGGCTTCG-3′ |
| QRT-napC-R | 5′-GCATCTTACGGGCTATCTTAT-3′ |
| QRT-napG-F | 5′-GGTCAATCGCAATAGCAAAG-3′ |
| QRT-napG-R | 5′-CCAGTTTCAGGGTGTCGTAG-3′ |
| QRT-nrfA-F | 5′-AGCACCCTGGTTATGAAA-3′ |
| QRT-nrfA-R | 5′-GAGTATGACAAGTCGCACA-3′ |
| QRT-nirK-F | 5′-AAGCCGACTTCTATGTGCC-3′ |
| QRT-nirK-R | 5′-TGATGTGCGGACGGGTGT-3′ |
| QRT-norBC-F | 5′-AAGCCAGCCGAGCAAGAT-3′ |
| QRT-norBC-R | 5′-CCAGGTACGAGTAACCGAGT-3′ |
| QRT-nosZ-F | 5′-CAGATAAGATGATCACCATC-3′ |
| QRT-nosZ-R | 5′-CGCTCGGCGGTGATCATCTCG-3′ |
| QRT-crp1-F | 5′-AGGGTTCTGTTGCCGTCTT-3′ |
| QRT-crp1-R | 5′-CTTTCTGGCTGGTGCTTTG-3′ |
| QRT-crp2-F | 5′-GCGCTGATGTTTAGTAGGC-3′ |
| QRT-crp2-R | 5′-GGGAAAAAGTTTCTGGCTG-3′ |
| QRT-crp3-F | 5′-GTGATAGGTTTCGATGGCA-3′ |
| QRT-crp3-R | 5′-AGACGGAACTCTTTGGGCG-3′ |
| QRT-16S-F | 5′-GGTTGATTAAGCGAGATGTG-3′ |
| QRT-16S-R | 5′-TGAGCGTCAGTCTTTGTCC-3′ |
| Primer extension | |
| oligo(dT) | 5′-GCCAGTCGTTTTTTTTTTTTTTTTT-3′ |
| nirK-1R | 5′-CTCCACCTGCTTCTCTTCTAC-3′ |
| nirK-2R | 5′-CTTCACCTGCACCACCTTAG-3′ |
| Other purposes | |
| gfp-F | 5′-GCACTACTGGAAAACTACCT-3′ |
| gfp-R | 5′-CAAGAAGGACCATGTGGTCTC-3′ |
| PV-4-crp2-F | 5′-GGAATTCCTGTTCATTATGATCTAGA-3′ |
| PV-4-crp2-R | 5′-GCTGCAGAGGCTACACCATCTCAATAG-3′ |
| nrfA-promoter-F | 5′-GCCTTTCTTCATGTATTAG-3′ |
| nrfA-promoter-R | 5′-GTCTTAAAAACCACAACATC-3′ |
| napD-promoter-F | 5′-GTGTCATAGCAAGCTCCCTC-3′ |
| napD-promoter-R | 5′-CTTGAGAGGTAACTGGAGCT-3′ |
| napE-promoter-F | 5′-CGCCATTTTGTGACTATGT-3′ |
| napE-promoter-R | 5′-GCAGATAAAGCAGGCTAGC-3′ |
| cymA-promoter-F | 5′-CTCGAAAATCCAACAAAATC-3′ |
| cymA-promoter-R | 5′-CACTCTATCTCCAAAATAATATG-3′ |
a
qRT-PCR, reverse transcription-quantitative PCR.