TABLE 5.
PCR clamping by elongation arrest: analysis of PNA-1114F target sequences (E. coli positions 1097 to 1116) of selected clones belonging to gene libraries generated by PCR clamping and reference sequences
| Group | Organism or clonea | Target sequence (5′→3′)b |
|---|---|---|
| Gene libraries generated by PCR clamping | rDNA clone C1-28 | CGCTAACGAGCGCAACCCCT |
| rDNA clone C2-12 | CCCTAACGAGCGCAACCCTC | |
| rDNA clone C1-3 (>99% similarity to rDNA clone SJA-4) | CTCTAACGAGCGCAACTCTT | |
| Reference sequences | rDNA clone SJA-4 | CTCTAACGAGCGCAACTCTT |
| Verrucomicrobium spinosum DSM 4136T | CCGCAACGAGCGCAACCCCT | |
| Pseudomonas sp. strain OLB-1 | CCGTAACGAGCGCAACCCTT | |
| rDNA clone SJA-108 | CGCTAACGAGCGCAACCCTC | |
| rDNA clone SJA-116 | CGCTAACGAGCGCAACCCTC | |
| rDNA clone WCHB1-50 | CCCTAACGAGCGCAACCCTC | |
| rDNA clone TM6 | CTTTAACGAGCGCAACTCCT |
a
The sources of the reference sequences were as follows: Pseudomonas sp. strain OLB-1, von Wintzingerode (24); SJA rDNA clones, von Wintzingerode et al. (23); rDNA clone WCHB1-50, Dojka et al. (6); and rDNA clone TM6, Rheims et al. (19).
b
The target region of PNA-1114F is underlined. The boldface letters indicate nucleotides that differed from nucleotides in sequences found in the 16S rDNA of V. spinosum and most other members of the domain Bacteria.