TABLE 1.
Characteristics of the primers used in this study
| Primer | Sequence (5′→3′) | Location | Nucleotide positions | Accession no. | Source or referencea |
|---|---|---|---|---|---|
| U7-L12 | ACACCTTGAGCAGGGCAAAG | thdF | 1-20 | AF261825.2 | 5 |
| LJ-R1 | AGTTCTAAAGGTTCGTAGTCG | int | 500-480 | AF261825.2 | 5 |
| RL-D3 | ATTGGTATGAGCCATGATGG | S024 | 20531-20550 | AF261825.2 | This study |
| S024-RV | GGTACGGTATCGCCTAAGTG | S024 | 21930-21911 | AF261825.2 | 9 |
| S026-FW | TCGGGTAATCTCAGCAGAGC | S026 | 25021-25040 | AF261825.2 | 9 |
| int-RV | GGGCATGGTGGCTGAAGGACC | intI1 | 27266-27246 | AF261825.2 | 9 |
| L2 | GACGATGCGTGGAGACC | intI1 | 27612-27628 | AF261825.2 | 30 |
| L3 | CTTGCTGCTTGGATGCC | 5′-CS | 27908-27892 | AF261825.2 | 21 |
| QS-1 | ATGAAAGGCTGGCTTTTTCTTG | qacEΔ1 | 28953-28974, 38413-38424 | AF261825.2 | 4 |
| QS-2 | TGAGTGCATAACCACCAGCC | sul1 | 29674-29655, 31934-31915 | AF261825.2 | 4 |
| sul1-F | GTGACGGTGTTCGGCATTCT | sul1 | 29297-29316, 35757-35776 | AF261825.2 | 17 |
| sul1-R | TTTACAGGAAGGCCAACGGT | sul1 | 39424-39405 | AF261825.2 | 17 |
| orf5-F | AGGTTGTGCGGCTGATGC | orf5 | 39776-39793 | AF261825.2 | 18 |
| orf5-R2 | CGAGTTCTAGGCGTTCTGC | orf5 | 40213-40195 | AF261825.2 | 18 |
| orf6-R | ACTATCTTCGGCCTTCACACG | orf6 | 40508-40488 | AF261825.2 | 18 |
| DB-T1 | TGCCACGCTCAATACCGAC | IS6100 | 41120-41138 | AF261825.2 | 3 |
| IS6100-Rv2 | AATGGTGGTTGAGCATGCC | IS6100 | 41475-41457 | AF261825.2 | 18 |
| MDR-Bb | GAATCCGACAGCCAACGTTCC | S044 | 41905-41884 | AF261825.2 | 3 |
| 104-RJ | TGACGAGCTGAAGCGAATTG | S044 | 42373-42392 | AF261825.2 | 5 |
| 104-D | ACCAGGGCAAAACTACACAG | yidY | 47130-47111 | AF261825.2 | 5 |
| RL-D1 | TTGTCCCTGATGAGACTGC | S044 | 41994-42012 | AF261825.2 | This study |
| RL-D2 | TCGGGATGATTGTGGCTCC | S044 | 42225-42207 | AF261825.2 | This study |
| 73QS-R1 | GTGGCAGCAACATCCTTTGG | aadA7 | 2843-2824 | AY463797.2 | This study |
| RH365 | CGATATGCACGCTCACC | Tn501mer | 3090-3074 | Z00027 | This study |
| RH383 | CTTCGTGAAATCAGCCCAG | Tn501mer | 384-366 | Z00027 | This study |
| RH389 | GTGCCGTCCAAGATCATG | Tn501mer | 1753-1770 | Z00027 | This study |
| RH444 | GACTCGCCGATGTTTCCACG | Tn501mer | 4303-4284 | Z00027 | This study |
| RH445 | GAACGCCTTGCCGTAATCG | Tn501mer | 2140-2158 | Z00027 | This study |
| RH446 | CTTACTGCGGTCAATCGTAGG | Tn501mer | 1860-1840 | Z00027 | This study |
| RH447 | CACACCAACTCAGACAGCACG | Tn501mer | 205-225 | Z00027 | This study |
| RH448 | CGGTGTTGGAACCCTATCG | Tn501mer | 753-771 | Z00027 | This study |
| CV-D1 | CAGCCGCAGTTCGTCTATG | Tn501mer | 2548-2566 | Z00027 | This studyc |
| CV-D2 | TCGTCAGGTAGGGGAACAAC | Tn501mer | 2941-2922 | Z00027 | This studyc |
a
Reference numbers are for the primer.
b
The sequence from AF261825.2 is GAATCCGACAGCCAACGCTTCC (the C in bold is not present in the primer).
c
Primer designed by C. Venturini.