TABLE 4.
Primers used in this study
| Locus | Primer | Sequence (5′–3′)a | Positionb | Amplicon size (bp) | Annealing temp (°C) | Source or reference |
|---|---|---|---|---|---|---|
| 16S rRNA | 16S-27F | AGAGTTTGATCCTGGCTCAG | 8–27 | 1,503 | 52 | 45 |
| 16S-1492R | GGTTACCTTGTTACGACTT | 1492–1510 | ||||
| gyrA | gyrA-164F | TGAAGAACGATTGGAACAARCCNTAYAARAARTC | 164–197 | 664 | 56 | This study |
| gyrA-827R | TTTTCAATCAAACGAGCTTTGTTHACYTGRTAHGG | 793–827 | ||||
| gyrB | UP-1 | GAAGTCATCATGACCGTTCTGCAYGCNGGNGGNAARTTYGA | 274–314 | 1,256 | 58 | 42 |
| UP-2r | AGCAGGGTACGGATGTGCGAGCCRTCNACRTCNGCRTCNGTCAT | 1486–1529 | ||||
| infB | infB-1426F | ATGCCACAGACTATTGAAGCDATYCARCAYGC | 1426–1457 | 830 | 56 | This study |
| infB-2255R | GCATCAGCACGAACGTTAAARCCNAYMAKRATNGC | 2221–2255 | ||||
| recN | recN-415F | AGTGAGCATCAACTGACCYTRYTNGAYAGYTAYGC | 415–449 | 863 | 54 | This study |
| recN-1277R | GGTTGTAAAGGTTGCCCTGGGTTDGTNSWNAC | 1246–1277 | ||||
| rpoA | rpoA-83F | TGGAGCCGCTTGAGCGTGGTTTYGGHCAYAC | 83–113 | 751 | 56 | This study |
| rpoA-833R | ATGTAATGAATCGCTTCGGCYTTYARRCAGTT | 802–833 | ||||
| topA | topA-70F | GAATTCATCGTTAAGTCGAGYGTDGGBCAYRT | 70–101 | 860 | 60 | This study |
| topA-929R | CGCTGGGCCATCATCATGGTYTTYTTNACNCC | 898–929 |
a
The nondegenerate primers in the 5′ region for sequencing are underlined.
b
Position numbering is based on the complete genome of Escherichia coli K-12 (NC_000913.3).