TABLE 2.
Oligonucleotide probes used in this study
| Probe | Specificity (rRNA target, position)a | Sequence | % Formamide | Reference |
|---|---|---|---|---|
| EUB338 | Bacteria (16S, 338–355) | GCTGCCTCCCGTAGGAGT | 20 | 1 |
| ARC915 | Archaea (16S, 915–934) | GTGCTCCCCCGCCAATTCCT | 20 | 52 |
| ALF1b | α-Proteobacteria (16S, 19–35) | CGTTCGYTCTGAGCCAG | 20 | 36 |
| BET42a | β-Proteobacteria (23S, 1027–1043) | GCCTTCCCACTTCGTTT | 35 | 36 |
| GAM42a | γ-Proteobacteria (23S, 1027–1043) | GCCTTCCCACATCGTTT | 35 | 36 |
| SRB385 | δ-Proteobacteria (16S, 385–402) | CGGCGTCGCTGCGTCAGG | 20 | 1 |
| BAC303 | Bacteroides-Prevotella (16S, 303–319) | CCAATGTGGGGGACCTT | 0 | 37 |
| CF319a | Cytophaga-Flavobacterium (16S, 319–336) | TGGTCCGTGTCTCAGTAC | 35 | 37 |
| HGC69a | Actinobacteria (23S, 1901–1918) | TATAGTTACCACCGCCGT | 25 | 49 |
| LGC354a | Firmicutes with low G+C content (16S, 354–371) | TGGAAGATTCCCTACTGC | 20 | 39 |
| LGC354b | Firmicutes with low G+C content (16S, 354–371) | CGGAAGATTCCCTACTGC | 20 | 39 |
| LGC354c | Firmicutes with low G+C content (16S, 354–371) | CCGAAGATTCCCTACTGC | 20 | 39 |
| DSV698 | Desulfovibrionaceae (16S, 698–717) | GTTCCTCCAGATATCTACGG | 20 | 38 |
| DSB985 | Desulfobacteriaceae (16S, 985–1004) | CACAGGATGTCAAACCCAG | 0 | 38 |
| MX825 | Methanosaeta (16S, 825–847) | TCGCACCGTGGCCGACACCTAGC | 20 | 47 |
| MS821 | Methanosarcina (16S, 821–844) | CGCCATGCCTGACACCTAGCGAGC | 20 | 47 |
a
E. coli numbering (8).