TABLE 2.
Oligonucleotide primers
| Primer | Sequence (5′-3′) | Tm (°C) | Gene (size [bp]) | Source or reference |
|---|---|---|---|---|
| 5′CS | GGCATCCAAGCAGCAAG | 55.2 | Variable | 25 |
| 3′CS | AAGCAGACTTGACCTGA | 51.4 | ||
| IntI1-F | GCCTTGCTGTTCTTCTACGG | 59.4 | int1 (550) | 16 |
| IntI1-R | GATGCCTGCTTGTTCTACGG | 59.4 | ||
| IntI2-F | CACGGATATGCGACAAAAAGGT | 58.4 | int2 | 18 |
| IntI2-R | GTAGCAAACGAGTGACGAAATG | 58.4 | ||
| IntI3-F | GCCTCCGGCAGCGACTTTCAG | 65.7 | int3 | 18 |
| IntI3-R | ACGGATCTGCCAAACCTGACT | 59.8 | ||
| SulI1-F | CTTCGATGAGAGCCGGCGGC | 65.5 | sul1 (430) | 29 |
| SulI1-R | GCAAGGCGGAAACCCGCGCC | 67.6 | ||
| qacEΔ1-F | ATCGCAATAGTTGGCGAAGT | 55.3 | qac (220) | 30 |
| qacEΔ1-R | CAAGCTTTTGCCCATGAAGC | 57.3 | ||
| P43F | CTGGATTCCCCAGAAAAACA | 59.9 | HCM1.043 (570) | This study |
| P43R | TGAATCACTGCCCGTATCAA | 60.0 | ||
| P54F | CTCCGCCTAGGTGTGTTTGT | 60.0 | HCM1.054 (733) | This study |
| P54R | CGTAATCGCCGTTTTCTTTG | 56.0 | ||
| P64F | ATGTGACCAACACGGAGACA | 58.0 | HCM1.064 (728) | This study |
| P64R | CATCGCCTTCCTGATGATCT | 58.0 | ||
| P94F | GGAACTAGCGGGATCATGTG | 60.4 | HCM1.094 (562) | This study |
| P94R | GTAAGACCCCGCCACTGTTA | 59.9 | ||
| P99F | AGAAAAACGGGGACCTCAGT | 59.9 | HCM1.099 (590) | This study |
| P99R | GGATTGCTCACGGGAGATTA | 60.0 | ||
| P107F | CAGCATTGAGCATGAAAGGA | 59.9 | HCM1.107 (583) | This study |
| P107R | TTCGCAGCCTCTTTCAATTT | 59.9 | ||
| P116F | TCTTCACCACGCCATATTCA | 56.0 | HCM1.116 (772) | This study |
| P116R | GTATCGTCATGCGGGTCTTT | 58.0 | ||
| P177F | CCTGATGGAGCCTTTGACAT | 60.1 | HCM1.177 (464) | This study |
| P177R | GAATCAGGGTCGATCGAAAA | 60.0 | ||
| P178acF | ACTGAGCTGTTCGCGATTTT | 60.0 | HCM1.178ac (578) | This study |
| P178acR | GCGGGGTGGTTAATGTCTTT | 61.1 | ||
| P259F | GAACGTAATTCCAGCGGAGA | 60.2 | HCM1.259 (599) | This study |
| P259R | CGCATTGTTTATGGCTACGA | 59.7 | ||
| P277F | TGTGCTTTACTGCCTGATGG | 59.8 | HCM1.277 (588) | This study |
| P277R | CGCATGGTTGTTTTGTATCG | 59.9 | ||
| P280F | GGTGTTTGGCGAGTTTAACG | 58.0 | HCM1.280 (576) | This study |
| P280R | CATCAGGTTGTTAGCCACGA | 58.0 | ||
| P286F | GCCCTTGTTCTGCTTTTCAG | 58.0 | HCM1.286 (713) | This study |
| P286R | CTCTCCATCAAACGGATGGT | 58.0 | ||
| HCM1.DF | CGATTTGTGAAGTTGGGTCA | 56.0 | Region D | This study |
| HCM1.DR | AGAAAGGATTCCCGGAAAAA | 54.0 | ||
| HCM1.EF | CCTTTACCATCTCGCCTCAC | 60.0 | Region E | This study |
| HCM1.ER | ACCTTATCGCACCACCAGAC | 60.0 | ||
| Insert1056L | TAGGGTTTGTGCGGCTTC | 56.0 | Ins1056 | This study |
| Insert1056R | CCTTCTTGTCGCCTTTGC | 56.0 | ||
| pSPA-07 | GAAAGGAATCATCCACCTTCA | 57.0 | Region C | This study |
| pSPA-08 | AACTGTCGCTACGCCTGACT | 60.0 | ||
| pSPA-09 | ATCCAGCGTGCAAAGATTTC | 56.0 | Region C | This study |
| pSPA-10 | TGGGGGAGAACACCACTTTA | 58.0 |