TABLE 1.
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 |
Boldface text indicates the complementary sequence used in overlapping extension PCR. Underlining indicates the restriction site as described in Materials and Methods.