Table 2.
Primers used in this study
| Primer | Sequence (5′ to 3′)a | Use and description | Reference |
|---|---|---|---|
| SD_hns(F) | GCTAGGAGCTCCAGCTTGAAGAAGCACTAGA | hns insertional mutation, forward primer, SacI site | This study |
| SD_hns(R) | GCTAGTCTAGACCAGAAAGTGCAGAAATTAA | hns insertional mutation, reverse primer, XbaI site | This study |
| hns_comp(F) | GCTAGCTGCAGTCGGCGATAAAACCTTTCAC | hns complementation, forward primer, PstI site | This study |
| hns_comp(R) | GCTAGCTGCAGGTTTACCTGAACGTGACGAC | hns complementation, reverse primer, PstI site | This study |
| Pm416 | TTAAATCTCGAATTCTTCTAGAGATTTACC | hns open reading frame, forward primer | This study |
| Pm417 | ATGTCTGAATTAACAAAAACTCTACTTAAT | hns open reading frame, reverse primer | This study |
| pr40 | CGGCTACTCGAGAGATTTACCTGCATCAAGTTG | hns 5′ region, forward primer, XhoI site | This study |
| pr41 | CGGCTATCTAGAGCACTTTCTGGTGAAACTAAG | hns 5′ region, reverse primer, XbaI site | This study |
| pr42 | CGGCTATCTAGAATTAATGCGCTTACATCAATA | hns 3′ region, forward primer, XbaI site | This study |
| pr37 | CGGCTAGAGCTCAGAAGCACTAGATAAATTAAC | hns 3′ region, reverse primer, SacI site | This study |
| pr38 | CGGCTATCTAGAGAAAAGCTTGAACACGTAGAA | Kanamycin resistance gene, forward primer, XbaI site | This study |
| Pm173 | ACTGATCTAGATCAGAAGAACTCGTCAAGAAG | Kanamycin resistance gene, reverse primer, XbaI site | This study |
| RT vah1-R1 | GACCGCCGAATCGATGATGAATC | vah1 qRT-PCR, forward primer | 4 |
| pvah1JR | GGTAGGACTGATGCCCACCTACAA | vah1 qRT-PCR, reverse primer | This study |
| plpF RT | CAGACGACCACCAGTAACCACTAA | plp qRT-PCR, forward primer | 4 |
| plpR RT | GCAATCATGATGACCCAGCAACAG | plp qRT-PCR, reverse primer | 4 |
| Pm111 | GGAAATTATTCCGCCGACGATGGA | rtxA qRT-PCR, forward primer | 5 |
| Pm112 | GCCGATACCGTATCGTTACCTGAA | rtxA qRT-PCR, reverse primer | 5 |
| Pm285 | GTGATGGTAGAAAACCTGCGG | rtxH qRT-PCR, forward primer | This study |
| Pm286 | ATGTCTGAGAAATTTGTCCAAACA | rtxH qRT-PCR, reverse primer | This study |
| iPCR rtxB R | CCGCTAACCGCATTGATATTAAGCTTGGC | rtxB qRT-PCR, forward primer | This study |
| Pm104 | TCACAATCGCCCCAACTTGCCTTG | rtxB qRT-PCR, reverse primer | This study |
| Pm297 | ACTGAGAGCTCGGTGTTGTTAAAGGCTATGGC | hlyU qRT-PCR, forward primer | 6 |
| Pm298 | ATCGATCTAGAGTATCCACTAACCCATCTCTT | hlyU qRT-PCR, reverse primer | 6 |
| Pm412 | CCGTATTTTCTGCAATCGCCATGG | vah1 promoter region (probe 1), forward primer, 5′ labeled with FAM | 6 |
| Pm324 | CACATATTGACTGATTATAATTTTATTGATATT | vah1 promoter region (probe 1), reverse primer | 6 |
| pr323a | AGGGTTTTTATAAATCCTAATTTAGATA | plp promoter region (probe 2), forward primer, 5′ labeled with FAM | This study |
| Pm320 | GAATACCCATTTTTTATTTTTTCAGACC | plp promoter region (probe 2), reverse primer | 6 |
| Pm327 | GTATTTTCTGCAATCGCCATG | vah1-plp (probe 3) intergenic region, forward primer | 6 |
| Pm413 | CACCTTTGTGGCGAATTATTAATAGATCTT | vah1-plp (probe 3) intergenic region, reverse primer, 5′ labeled with FAM | 6 |
| Pm414 | CAGTGGCTCATAAAAGCAGTTGC | rtxB-rtxH intergenic region (probe 4), forward primer, 5′ labeled with FAM | 6 |
| Pm318 | CAGCGGTAAGTAGACTGATA | rtxB-rtxH intergenic region (probe 4), reverse primer | 6 |
| Pm315 | CTCAGACATAAATAAATCACC | rtxB-rtxH intergenic region (probe 5), forward primer | 6 |
| Pm415 | CAGCGGTAAGTAGACTGATAAGCAATG | rtxB-rtxH intergenic region (probe 5), reverse primer, 5′ labeled with FAM | 6 |
a
Underlined sequences are engineered restriction sites.