TABLE 1.
Oligonucleotides used in this study
| Method and oligonucleotide | Sequence (5′-3′)a |
|---|---|
| Standard methods | |
| P1 | ACGCGATATCAAACTATTATTAAGTAAAACTAG |
| P2 | ACGCGCTAGCCTTCAAGTTGATCAATAATTGAT |
| P3 | TGGTGTTAAACGCTTACCTAACCCGGGACCATTATGCACGCAATGAATATG |
| P4 | TTAGGTAAGCGTTTAACACCA |
| P5 | ATGCCTAGAATTTTACTC |
| P6 | GTTATTTCTCAGTCACTAA |
| P7 | ACGCAAGCTTAGATGCTGAAAACTGTTTAC |
| P8 | ACGCAAGCTTAGGGATTCGTTCAATCGACA |
| P9 | ACGCGAATTCATTTGGAATCAGGTGAAGATC |
| P10 | ACGCGAATTCCCCGAACTTGCGAGGGATTCG |
| catP(F) | ACGCCCCGGGGTTGATACCGGGAAGCCCTGG |
| catP(R) | GTATATCCAGTGATTTTTTTCTCCATTTTAGCTTCCTTAGCTCCTGAAAA |
| cat(F) | ATGGAGAAAAAAATCACTGGATATAC |
| catSL33(R) | ACGCCCCGGGCATTATTCCCTCCAAAAATTA |
| DeltaEcat(F) | CCGTTTTTATCAGGCTCTGG |
| DeltaEcat(R) | CTTTTGCCGTTACGCACCAC |
| pQE30cpxR-F | ACGCGGATCCATGCCTAGAATTTTACTC |
| pQE30cpxR-R | ACGCCTGCAGGTTATTTCTCAGTCACTAA |
| Real-time RT-PCR | |
| HD1505F | AAAGTTTCAGCAGGGACAGC |
| HD1505R | TGCCGACAGTTTGGATGTAT |
| HD1155F | ATATACCGTCCGCGGTTTTA |
| HD1155R | CCATGCCGACAAGTATATCG |
| HD1156F | TGAATGGGCGAAAAATGATA |
| HD1156R | AACGCCCGGTACAGTAATTT |
| HD2025F | GCCGTTTATTTAGCCTCGAA |
| HD2025R | AGAACGAAGGATGCTGGAAT |
| HD1643F | TCCGTTAAAGTACCCGATCC |
| HD1643R | GCACGAGCAGCATCAATAAT |
| HD1312F | TTCAGCGACTGAAAGTTTACG |
| HD1312R | GCCATTAGCGCTACTTATACCA |
| HD0198F | TGAACGTTTAACCGCACAAT |
| HD0198R | ATAACCATACGCATCGTGGA |
| HD0046F | GGTTGGGCAAGTTTCCATAG |
| HD0046R | TAATTCAGCCGCTAAACCTG |
| HD0045F | AGTTCACTACCTGGGGCATT |
| HD0045R | ATAGGGGGTCTTGGTCCT |
| HD1433F | CCACCGAATCCAAAGAAACA |
| HD1433R | TGGCAGTAATACCCAAACGA |
| HD0769F | TGCAAACTGGTTTAGCCAAC |
| HD0769R | ATGCCGCCATTGTAGGTATT |
| HD1435F | GCCTCAGCAGTTACGCTTTA |
| HD1435R | GGGCTGATAAACCAATACGG |
| HD1772F | GATGCTATGGCGGTTAATCA |
| HD1772R | GTTCATCCGCATGTCCTGTA |
| HD0902F | CTGATAGTGGTGCGGTTGTC |
| HD0902R | CTAATACAGGGGGAGCGAGA |
| HD1470F | CAAGAAAGCCGTCAAACAGA |
| HD1470R | GGTTCAAGTGGTTGTGC |
| HD1469F | TAAGTGCCCGAGATGATGAA |
| HD1469R | ATGGTTTGATGGCGTGACTA |
| EMSA | |
| HD1155P(F) | AGTAAATTTCTTCAAAAATGT |
| HD1155P(R) | TGAAAGCATAAATAAATAAGA |
| HD1505P(F) | AAAGATTTAATTAAACAGGCT |
| HD1505P(R) | AGTTTATAACGTTTGTTGTTC |
| HD1643P(F) | GCTTGAATATTGCAAAGATTC |
| HD1643P(R) | TTAATACTCGAAGAATCATAA |
| RT-PCR | |
| HD1468-cpxR F | ATCGCAGTCAAAAAGCAAGGA |
| HD1468-cpxR R | TGCATCTTGACCATTATGCAC |
| cpxR-cpxA F | CGTAATGATAACCTCCCATGG |
| cpxR-cpxA R | TAAGCCAAAATAGGCAAAGAG |
| cpxA-HD1471 F | GGTTTGGGCCTTGCGATTGTA |
| cpxA-HD1471 R | CGGCAATGAAGCAGTCACACC |
a
Boldface text indicates the complementary sequence used in overlapping extension PCR. Underlining indicates the restriction site as described in Materials and Methods.