TABLE 1.
PCR oligonucleotides used in this study
| Primer | Specificity | Amplicon size | Nucleotide sequence (5′-3′)a |
|---|---|---|---|
| KshAType-F | kshA homologue | 0.3 kb | TGYCCITTCCAYGAYTGGCGITGGGGIGG |
| KshAType-R | kshA homologue | TGIACGTAAAGAAGRTGIGCCATRTC | |
| KshA2-F | kshA2, kshA3 | 0.6 kb | CTCGATGCCTACTGCCGTCAC |
| KshA2-R | kshA2, kshA3 | CGGATAGTGGCAGTTGATCAAAAC | |
| KSHA2EX-F | kshA2 | 1,167 bp | GGCCATATGTTGACCACAGACGTGACGACC (NdeI) |
| KSHA2EX-R | GCCACTAGTTCACTGCGCTGCTCCTGCACG (SpeI) | ||
| RT-KSHA2-F | kshA2 | 469 bp | AGCCAGAGCGAATTGAAGGT |
| RT-KSHA2-R | ATGTCGTCGCGGTTGATACC | ||
| RT-KSTD1-F | kstD1 | 489 bp | CCAGGTGCAGGAACGCGCCG |
| RT-KSTD1-R | CGCCTTGATTCGCTGGGTTT | ||
| 16SRNA-RHODO-F | 16S rRNA | 427 bp | GTCTAATACCGGATATGACCTC |
| 16SRNA-RHODO-R | R. erythropolis (4) | GCAAGCNAGNAGTTGAGCTGCTGGT | |
| delKSHA2-R | Upstream kshA2 | NAb | TCGAATACTGGGGACACGAAGC |
| BLF | bla | 809 bp | GCGCATATGCACCCAGAAACGCTGGTGAAAG (NdeI) |
| BLR | GCGACTAGTTACCAATGCTTAATCAGTGAGGC (SpeI) |
a
I, inosine; Y, C+T; R, A+G; N, any base. Underlined nucleotide sequences indicate incorporated restriction sites.
b
NA, not applicable.