Table 2.
Primers and probes used in this study
| Primer name | 5′→3′ sequencea | Gene(s) |
|---|---|---|
| algR-CdgRgn-KpnI-F | TATCCGGTACCGTGACTCATGCAGGAAGCC | algR |
| algR-CdgRgn-HindIII-R | CCGCCGAAAGCTTTCAGAGCTGATGCATCA | algR |
| algRSalIF | CCTGTCGACATGAATGTCCTGATTGTCGATGAC | algR |
| algRNotIR | AGCCGCGGCCGCTCAGAGCTGATGCATCAGACG | algR |
| algR-D54E-XbaI-F | CTTCTAGAAATCCGCATGCCCGG | algR |
| algR-D54E-XbaI-R | CGGATTTCTAGAAGGACGATATC | algR |
| fimU TF XbaI | CATGGTCTAGAGGTCGCAGAGAGC | fimU |
| fimU TFR HindIII | CTCCAAGCTTTCTACGCCTGG | fimU |
| fimU gs frag F | GGGGTCTACGCCTGGAAAGC | fimU |
| fimU gs frag R | GTTGTCCTGCCCCTCGGGCCG | fimU |
| pscF GS ContF | AAGGCGGTCTCGGCATTCTTTC | pscEF |
| pscF GS Cont R93 | CCACGGTATCGAGGGTATTC | pscEF |
| rhlA TF BamHI F | GGACGGATCCCATGACCATCAAATCG | rhlA |
| rhlA TF PstI R | CGAACCTGCAGACAGCTATCGCT | rhlA |
| rhlA qRT F | TTTCACATCGACCAGGTGC | rhlA |
| rhlA qRT R | CGAGACCGTCGGCAAATAC | rhlA |
| rhlA qRT probe | 56-FAM-ATGTGCTGA-ZEN-TGGTTGCTGGCTTTC-3IABKFQ | rhlA |
| rpoD qRT F | GGGCGAAGAAGGAAATGGTC | rpoD |
| rpoD qRT R | CAGGTGGCGTAGGTGGAGAA | rpoD |
| rpoD qRT probe | 56-FAM-TGAAGGCGG-ZEN-TGGACAAGTTCGAAT-3IABKFQ | rpoD |
| rhlA gs frag 1F | GATTCGCGATCATTTTTCGCAGCT | rhlA |
| rhlA gs frag 1R | CACGTCGTAGCCGTAGCTGGACAC | rhlA |
| rhlA gs frag 2F | GTGTCCAGCTACGGCTACGACG | rhlA |
| rhlA gs frag 2R | GTTCGGCGGGATGATGCAGACGTCG | rhlA |
| rhlA gs frag 3F | CGACGTCTGCATCATCCCGCCGAAC | rhlA |
| rhlA gs frag 3R | CGTAGATCTTCGCCGGCAGGTTG | rhlA |
| rhlA gs frag 4F | CCAACCTGCCGGCGAAGATCTACG | rhlA |
| rhlA gs frag 4R | GTTTCCGGTGTCGAAACGCTCTG | rhlA |
| rhlA gs frag 5F | CAGAGCGTTTCGACACCGGAAAC | rhlA |
| rhlA gs frag 5R | CAAACGATTGGCGTCCGTGTTCACG | rhlA |
| rhlA gs frag 6F | CGTGAACACGGACGCCAATCGTTTG | rhlA |
| rhlA gs frag 6R | CGCGCCGCATTTCACACCTCCC | rhlA |
| rhlA SDM WT RB1 F | GCATGATCGAGCCGTTCGTCGAGCGCCAG | rhlA |
| rhlA SDM delta RB1 F | GCATGATCGAGCCATTTGTAGAGCGCCAG | rhlA |
| rhlA SDM WT RB2 R | CTCGATCATGCCGTGCTCCTGAGCCATGC | rhlA |
| rhlA SDM delta RB2 R | CTCGATCATTCCATGTTCTTGAGCCATGC | rhlA |
| rhlAB EcoRI F | GAGGAATTCGATGCGGCGCGAAAGTC | rhlAB |
| rhlAB HindIII R | CAAGCTTTCAGGACGCAGCCTTCAGC | rhlAB |
a
56-FAM, 5(6)-carboxyfluorescein; 3IABKFQ, 3′ Iowa Black FQ.