TABLE 2.
Data on probes used in the present study
| Probe | Target (positions)a | Sequence (5′→3′) | Applied stringency (formamide concn [%]) | Source or reference |
|---|---|---|---|---|
| XAN818 | Xanthomonas branch 16S rRNA (818–835) | CAACATCCAGTTCGCATC | 10 | This study |
| EUB338 | Bacterial 16S rRNA (338–355) | GCTGCCTCCCGTAGGAGT | 10 | 4 |
| EUK516 | Eucaryal 18S rRNA (502–516) | ACCAGACTTGCCCTCC | 20 | 4 |
| ARCH915 | Archaeal 16S rRNA (915–934) | GTGCTCCCCCGCCAATTCCT | 20 | 33 |
| ALF968 | α-proteobacterial 16S rRNA (968–986) | GGTAAGGTTCTGCGCGTT | 35 | 23 |
| BET42a | β-proteobacterial 23S rRNA (1027–1043) | GCCTTCCCACTTCGTTT | 35 | 19 |
| CF319a | Cytophaga-Flavobacterium cluster of CFB phylum 16S rRNA (319–336) | TGGTCCGTGTCTCAGTAC | 35 | 18 |
| GAM42a | γ-proteobacterial 23S rRNA (1027–1043) | GCCTTCCCACATCGTTT | 35 | 19 |
| HGC69a | Actinobacterial (Firmicutes with high DNA G+C content) 23S rRNA (1901–1918) | TATAGTTACCACCGCCGT | 20 | 30 |
| LGC354a | Firmicutes with low DNA G+C content 16S rRNA (354–371) | TGGAAGATTCCCTACTGC | 35 | 20 |
| LGC354b | Firmicutes with low DNA G+C content 16S rRNA (354–371) | CGGAAGATTCCCTACTGC | 35 | 20 |
| LGC354c | Firmicutes with low DNA G+C content 16S rRNA (354–371) | CCGAAGATTCCCTACTGC | 35 | 20 |
| PLA46 | Planctomycetal 16S rRNA (46–63) | GACTTGCATGCCTAATCC | 35 | 24 |
| NON338 | Negative control | ACTCCTACGGGAGGCAGC | 10 | 38 |
a
E. coli numbering (6).