TABLE 2.
The PCR sequencing primers and FISH oligonucleotides for general and specific detection of AOB
| Primer or probe | Sequence (5′–3′) | Target site | Annealing temp (°C) | NaCl concn (mM) | % Formamide | Specificity | Reference |
|---|---|---|---|---|---|---|---|
| CTO189f | GGA GRA AAG YAG GGG ATC G | 189–207 | 57 | β proteobacterial AOB | 16 | ||
| NITROSO4Er | CAC TCT AGC YTT GTA GTT TC | 639–658 | 57 | β proteobacterial AOB | 12 | ||
| NSMR71f | CGG AAC GTA TCC AGA AGA | 126–143 | 54 | Nitrosomonas marina-like AOB | This study | ||
| NSMR74r | ATC TCT AGA AAA TTC GCT | 1,000–1,017 | 54 | Nitrosomonas marina-like AOB | This study | ||
| NSMR32f | ATC GGA ACG TAT CTT CG | 125–141 | 56 | Nitrosospira tenuis-like AOB | This study | ||
| NSMR33r | CCA CCT CTC RGC GGG C | 1,006–1,021 | 56 | Nitrosospira tenuis-like AOB | This study | ||
| NSMR52f | TCA GAA AGA AAG AAT CAT G | 443–461 | 56 | Nitrosomonas europaea-like AOB | This study | ||
| NSMR53r | GTC TCC AYT AGA TTC CAA G | 999–1,017 | 56 | Nitrosomonas europaea-like AOB | This study | ||
| NMOB1f | GTT GGG AAG AAA CGA TTR CA | 442–461 | 56 | Nitrosococcus mobilis-like AOB | This study | ||
| NMOB1r | CAC TTT TAT GTC TCC GTA AAA | 1,006–1,026 | 56 | Nitrosococcus mobilis-like AOB | This study | ||
| EUB338 | GCT GCC TCC CGT AGG AGT | 338–355 | 225 | 20 | Bacteria | 2 | |
| NITROSO4E | CAC TCT AGC YTT GTA GTT TC | 639–658 | 225 | 20a | β proteobacterial AOB | This study | |
| Nso190 | CGA TCC CCT GCT TTT CTC C | 190–209 | 20 | 55 | β proteobacterial AOB | 23 | |
| NSMR76 | CCC CCC TCT TCT GGA TAC | 132–149 | 225 | 20 | Nitrosomonas marina-like AOB | This study | |
| NSMR34 | TCC CCC ACT CGA AGA TAC G | 131–149 | 225 | 20 | Nitrosospira tenuis-like AOB | This study | |
| S-G-Ntspa-0685-a-A-22 | CAC CGG GAA TTC CGC GCT CCT C | 664–685 | 225 | 20b | Nitrospira-like NOB | This study |