TABLE 2.
Oligonucleotides
| Primer | Sequence (5′→3′) | Use/location |
|---|---|---|
| oMC13 | 5′-GCACATGTCCTTGGTTGTGTTGCTTTTCG-3′ | catP gene PCR |
| oMC14 | 5′-GCTCTTCTAGCGCCTACGGGGAATT-3′ | catP gene PCR |
| oMC15 | 5′-GCAGGCCCTCGGATCTTTTCCGCTGCA-3′ | oriT PCR |
| oMC16 | 5′-GCGACGTCCTTATCGGCCAGCCTCG-3′ | oriT PCR |
| oMC44 | 5′-CTAGCTGCTCCTATGTCTCACATC-3′ | rpoC qPCR |
| oMC45 | 5′-CCAGTCTCTCCTGGATCAACTA-3′ | rpoC qPCR |
| oMC55 | 5′-GGTTTTCTAAATGGGAAGGTAAA-3′ | cprK sequencing |
| oMC56 | 5′-CCAGATAAGTCATTAATTGCTGCG-3′ | cprK sequencing |
| oMC57 | 5′-GCTCTGAATAACAGTTCTCTATCTA-3′ | cprK sequencing |
| oMC96 | 5′-CGTTCAGGTCAATTCTCTCTAGGC-3′ | cprA qPCR/sequencing |
| oMC97 | 5′-GGTCAAGACCATTTGTAGGCTC-3′ | cprA qPCR/sequencing |
| oMC121 | 5′-CGTATTGGCGCCAACCAGGAATATAGTGTATGCA-3′ | ori69 PCR |
| oMC122 | 5′-CGTATTGGCGCCCTAGAGAACCAAACGACGG-3′ | ori69 PCR |
| oMC123a | 5′-AAAAGCTTTTGCAACCCACGTCGATCGTGAAGAAAGGATTTATGTGCGCCCAGATAGGGTG-3′ | cprA intron retargeting |
| oMC124a | 5′-CAGATTGTACAAATGTGGTGATAACAGATAAGTCATTTATCATAACTTACCTTTCTTTGT-3′ | cprA intron retargeting |
| oMC125a | 5′-CGCAAGTTTCTAATTTCGGTTCTTTCTCGATAGAGGAAAGTGTCT-3′ | cprA intron retargeting |
| EBS universal | 5′-CGAAATTAGAAACTTGCGTTCAGTAAAC-3′ | Sigma-Aldrich |
| oMC126 | 5′-GCTACTACTTTATTGAGTACGGCA-3′ | CD1348 qPCR |
| oMC127 | 5′-CTTCATCCTTCTTTACAACTGCTG-3′ | CD1348 qPCR |
| oMC128 | 5′-GCGTATTACACAGGAGTTTGAACC-3′ | ori69 sequencing |
| oMC129 | 5′-GCATTGTATGTATCTTTTATTCCTAGC-3′ | ori69 sequencing |
| oMC130 | 5′-GGAGCAGATGGCAGTTGATAAC-3′ | cprA PCR |
| oMC137 | 5′-GCTGCTTTCAACTGGTGGTA-3′ | cprB qPCR |
| oMC138 | 5′-CCAGTCCAAACGTCTTTCATTTC-3′ | cprB qPCR |
| oMC139 | 5′-GCACATTTGCATTGCTTTAATGGG-3′ | cprC qPCR |
| oMC140 | 5′-CATTGAACACACAACACCTGAC-3′ | cprC qPCR |
| oMC141 | 5′-GAAGAAAGGCATGCATATTCAGA-3′ | cprK qPCR |
| oMC142 | 5′-TCATACCCAATGTCTCTGGT-3 | cprK qPCR |
| oMC144 | 5′-GCGGATCCGGTTCGGAAAAGGAACATC-3 | PcprK cloning |
| oMC145 | 5′- GCAAGCTTGTTACCATAGCACCACCAG-3′ | PcprK cloning |
| oMC146 | 5′-GCGGATCCGCTACTACTTTATTGAGTACGG C-3′ | PcprABC cloning |
| oMC147 | 5′-GCGCATGCCAAGCATTTGTACCCTGTCCTC-3′ | PcprABC cloning |
| BC1ab | 5′-AATGATACGGCGACCACCGAGATCTACACTCTTTCCCTACACGACGCTCTTCCGATCTAACCT-3′ | DNA barcoding |
| BC1bb,c | 5′-*GGTTAGATCGGAAGAGCGGTTCAGCAGGAATGC CGAGACCGATCTCGTATGCCGTCTTCTGCTTG-3′ | DNA barcoding |
| Olj139 | 5′-AATGATACGGCGACCACCGAGATCTACACTCTTTCCCTACACGA-3′ | DNA barcoding |
| Olj140 | 5′-CAAGCAGAAGACGGCATACGAGATCGGTCTCGGCATTCCTGCTGAAC-3′ | DNA barcoding |
a
Underlined bases denote retargeted sequences.
b
Underlined bases define the barcode.
c
Asterisk denotes the position of 5′ phosphorylation.