TABLE 1.
Primers used for amplification of 16S rDNA of the domain Bacteria and a central region of the nir gene
| Primera | Positionsb | Sequencec |
|---|---|---|
| F-27 | 8-27 | 5′-AGAGTTTGATCMTGGCTCAG-3′ |
| R-1492 | 1492-1513 | 5′-TACGGYTACCTTGTTACGACTT-3′ |
| GC-F-984 | 968-984 | 5′-GC-clamp-AACGCGGAAGAACCTTAC-3′ |
| R-1385 | 1385-1401 | 5′-CGGTGTGTACAAGAAGACCC-3′ |
| F-536 | 519-536 | 5′-CAGCAGCCGCGGTAATAC-3′ |
| R-907 | 907-926 | 5′-(Ph)-CCGTCAATTCCTTTRAGTTT-3′ |
| F-nir | NA | 5′-CGCCAGAGTTCTCCCTGCAG-3′ |
| R-nir | NA | 5′-TTGCCGGTCTTGGTGTCGAC-3′ |
a
F, forward primer; R, reverse primer; primers GC-F-984 and R-1385 were also termed U-968-GC-1 and L-1401, respectively, whereas primers F-536 and R-907 were also termed GM5f and 907R (or COM1), respectively.
b
E. coli numbering; NA, not applicable.
c
GC-clamp, 5′-CGC CCG GGG CGC GCC CCG GGC GGG GCG GGG GCA CGG GGG G-3′. For SSCP, the primer R-907 was phosphorylated at the 5′ end (Com2-Ph).