TABLE 2.
Primers used for RT-PCR and PCR amplification of selected DNA fragments
| Primer | Oligonucleotide sequences (5′→3′) | Relevant characteristics |
|---|---|---|
| PAW3-U | ACGGGGAAGCGCGGGGGAAAGAGG | Amplification of mor gene region, 3,548 bp |
| PAW3-L | GCGCGACAGAAAGCCGAACAGC | |
| PJW1-U | CACCGTTGCACCGCCCACAGT | RT-PCR (modC-modD), 694 bp (fragment 1 in Fig. 1) |
| PJW1-L | TGCCCCCACCGACACCACGATTCT | |
| PJW2-U | GGTGATCTGCCGCCCCTCCTG | RT-PCR (modB-modC), 606 bp (fragment 2 in Fig. 1) |
| PJW2-L | GGTCGTCGGCTCGGTCATCTATTC | |
| PJW3-U | CCAGCCCCGCGAAGGTGAAGGA | RT-PCR (modA-modB), 688 bp (fragment 3 in Fig. 1) |
| PJW3-L | TGACAAGGGCGCGGTGCTGAAAAC | |
| PJW4-U | GACGCATCGGCCGAAAGAAAGAC | RT-PCR (mopA-modA), 757 bp (fragment 4 in Fig. 1) |
| PJW4-L | CGCGCCGGAAAAAGCCCTCAAC | |
| PJW5-U | GCGCCGTGCCATTGAAA | RT-PCR (morC-orf1281), 639 bp (fragment 1 in Fig. 2) |
| PJW5-L | GGCGCTTGATCCCGACACC | |
| PJW6-U | ACGGCAAGGCGGGGCGGCAGTAT | RT-PCR (morA-morB), 519 bp (fragment 3 in Fig. 2) |
| PJW6-L | CCAGCACGATCGGCGGAAACACCA | |
| PJW7-U | GCTTGGCGCGGGGCTCTT | RT-PCR (morB-orf1277), 672 bp (fragment 4 in Fig. 2) |
| PJW7-L | CGGGGCTGACGCAAATCC | |
| PJW8-U | CGGTCTGGTGCGGATGGGGTCTTC | RT-PCR (orf413-mop), 624 bp (fragment 1 in Fig. 3) |
| PJW8-L | TCGGCGGCGGCTTCGTTGGTGAT | |
| PJW9-U | CAATATTTGGCGGGCAAGGTCAC | RT-PCR (mop-orf411), 559 bp (fragment 3 in Fig. 3) |
| PJW9-L | GCGCGAAGCAAGGCAGGAGA | |
| PJW9-U | CAATATTTGGCGGGCAAGGTCAC | RT-PCR (mop), 117 bp (fragment 2 in Fig. 3) |
| PJW8-L | TCGGCGGCGGCTTCGTTGGTGAT | |
| PJW12-U | GGGCGGCCGTTCCTGTTCCT | mop promoter fragment (509 bp) in pJW42 |
| PJW12-L | TCGGCGGCGGCTTCGTTGGTGAT | |
| PJW18 | GAAGGCCCCGTCAGCACCAGAAAT | Primer extension (morC) |
| PJW19 | TCGGCGGCGGCTTCGTTGGTGAT | Primer extension (mop) |
| PJW27-U | AACATATGAACGAACAGCCCCTCATCG | Amplification of mopA coding region |
| PJW27-L | TTCTCGAGGGGCATCGCCAGGATGACATG | |
| PJW28-U | AACATATGACGGACGGTGTGCGCGGGG | Amplification of mopB coding region |
| PJW28-L | TTCTCGAGGGGCAGGGCCAGGATCACATG | |
| PJW29-U | CCTCGGCGGTCTCGTGGCTTGTCATCA | morA-morC intergenic region (1,139 bp) in pJW45 |
| PJW29-L | ACTGCCGCCCCGCCTTGCCGTAAAT | |
| PJW36-U | CCTCGGCGGTCTCGTGGCTTGTCATC | RT-PCR (morC), 363 bp (fragment 2 in Fig. 2) |
| PJW36-L | CGCGGTCGCTGGGCTTTGTCTTTCA | |
| PJW49-U | GGCACTGACCGACCTTTTGACC | DNA mobility shift, 222 bp (mop promoter) |
| PJW49-L | AGAATATTGCGTGCGCTGAGTTT | |
| PJW52-U | ACGGGCAGGCGCGGGGTTCT | DNA mobility shift, 236 bp (anfA promoter) |
| PJW52-L | CGGTAAAGCGTCGGCAGCAGGTTCA | |
| PJW53-U | GCATCCCAGGCGGTCTTGTAGG | DNA mobility shift, 272 bp (mopA promoter) |
| PJW53-L | ATGAGGCCGCGGGTGATAACG | |
| PJW54-U | CAGCCCGACATCGAGCGTGAAC | DNA mobility shift, 244 bp (morC/A promoter) |
| PJW54-L | CGGCAGAGGCGGAAAGGAGAAGA | |
| PJW55-U | ACTGCGCCGCGATCCCCGAGAC | DNA mobility shift, 251 bp (anfA internal fragment) |
| PJW55-L | CGCCGCAATCACCCGCACATCA |