| Probe name |
Specificity |
| Gor596 | Gordonia (Gordona) |
| ACA652 (ACA23A) | Acinetobacter |
| G.am1-439 | Gordona amarae group 1 strains |
| G.am205 | Gordona amarae |
| G.am2-439 | Gordona amarae group 2 strains |
| G123T | Thiothrix eikelboomii, T. nivea, T. unzii, T. fructosivorans, T. defluvii, Eikelboom type 021N group I, II, III |
| G1B | Eikelboom type 021N group I |
| G2M | Eikelboom type 021N group II |
| G3M | Eikelboom type 021N group III |
| Goam192 | Gordona amarae |
| H7-1014 | activated sludge clone H7 |
| HoAc1402 | Acidobacteria, activated sludge clones A22, A34, H3, H44, S6 |
| NB1000 | Nitrobacter spp. |
| NIT3 | Nitrobacter spp. |
| NmV (Ncmob) | Nitrosococcus mobilis (Nitrosomonas) lineage |
| Nscoc128 | Nitrosococcus oceani, N. halophilus (Gammaproteobacteria) |
| Nse1472 | Nitrosomonas europea, N. halophila, N. eutropha, Kraftisried-Isolat Nm103 |
| Nsm156 | Nitrosomonas spp., Nitrosococcus mobilis |
| Nso1225 | Betaproteobacterial ammonia-oxidizing bacteria |
| Nso190 | Betaproteobacterial ammonia-oxidizing bacteria |
| Nsv443 | Nitrosospira spp. |
| Ntcoc84 | Nitrococcus mobilis |
| Ntspa1026 | Nitrospira moscoviensis, activated sludge clones A4 and A11 |
| Ntspa662 | genus Nitrospira |
| Ntspn693 | Nitrospina gracilis |
| OTU1-1415 | Zoogloea ramigera, activated sludge clones A16, H7, H10, H11, H13, H22, H27. H40, S21 |
| OTU14-129 | Hyphomicrobium spp., activated sludge clones A7b, A39 |
| OTU16-1027 | activated sludge clones H4, H6, H29, S7 |
| OTU16-1350 | activated sludge clones H4, H6, H29, S7 |
| OTU17-66 | activated sludge clones H46, S43 |
| OTU2-132 (ATDe132) | Activated sludge clones A33, H25, H30, H35, S3, S10, and S23 of the Azoarcus-Thauera-Denitromonas lineage |
| OTU2-467 | activated sludge clones A33, H25, H30, H35, S3, S10, S23 |
| OTU25to31-1406 | some Anaerolineae |
| OTU26-650 | activated sludge clones A11b, A30, H1, H19 |
| OTU28-1346 | activated sludge clones H39, S41 |
| STEBA1426 | Some members of the Sterolibacterium lineage |
| OTU31-656 | activated sludge clones H8, S9 |
| OTU32-208 | activated sludge clones A31, S47 |
| OTU32-630 | activated sludge clones A31, S47 |
| OTU3-445 | activated sludge clones A13, H12, H20, H23, S28, S40 |
| OTU43/44-360 | Acidobacteria group a, activated sludge clones A22, A34, H3 |
| OTU45-720 | activated sludge clones H44 and S6, soil clone C105, soil clone 11-25, Antarctic lake ice clone LB3-30 |
| OTU4-645 | Alcaligenes latus, activated sludge clones A2, A26b |
| OTU6-178 | Brachymonas denitrificans, activated sludge clone A6b |
| PS-1 | Leptothrix spp., Sphaerotilus natans ATCC 29329 |
| PSP-6 | Leptothrix discophora SP-6, L. cholodnii CCM1827, Leptothrix sp. strain NC-1 |
| ZAL | Zoogloea ramigera ATCC 19623 |
| ZBE | Zoogloea ramigera ATCC 25935 |
| ZRA23a (ZRA,ZOGLO647) | Most members of the Zoogloea lineage, not Z. resiniphila |
| NEU | Most halophilic and halotolerant Nitrosomonas spp. |
| Amx1900 | anaerobic ammonium-oxidizing bacteria, Candidatus `Brocadia anammoxidansapos and Candidatus `Kuenenia stuttgartiensisapos |
| Kst157 | Candidatus Kuenenia stuttgartiensis |
| Ban162 (B. anam.) | Candidatus Brocadia anammoxidans |
| Amx820 | anaerobic ammonium-oxidizing bacteria, Candidatus `Brocadia anammoxidansapos and Candidatus `Kuenenia stuttgartiensisapos |
| RHC175a | Most members of the Dechloromonas-Ferribacterium-Quadricoccus-Azonexus, the Azospira, and the Rhodocyclus-Propionivibrio-Accumulibacter lineages |
| RHC439 | Rhodocyclus spp., most member of the Candidatus Accumulibacter cluster, Azospira lineage |
| RHW456 | Bio-P enrichment culture clone R1 |
| RHW991 | Bio-P enrichment culture clone R1 |
| RHX456 | Candidatus Accumulibacter phosphatis (clone R6) |
| RHX991 | Candidatus Accumulibacter phosphatis (clone R6) |
| CHL 1851 | filamentous bacterium Eikelboom Type 1851 |
| Gam1019 | phosphate accumulating bacteria (Gammaproteobacteria) |
| Gam1278 | phosphate accumulating bacteria (Gammaproteobacteria) |
| PAO846 | Candidatus Accumulibacter phosphatis |
| actino-1011 | Tetrasphaera japonica, enhanced biological phosphorus removal clone Ebpr19, Ebpr20 (Actinobacteria) |
| NSR826 | Nitrospira moscoviensis, freshwater Nitrospira spp. |
| NSR1156 | Nitrospira moscoviensis, freshwater Nitrospira spp. |
| NSR447 | Nitrospira spp. |
| MNP1 | nocardioform actinomycetes |
| MLP | Mycobacterium sp. SMKN23, Mycobacterium sp. SMKN22, (nocardioform actinomycetes) |
| DLP | nocardioform actinomycete sp. |
| GLP1 | Gordona sp. SMKN27, Gordona sp. SMKN12, Gordona sp. SMKN17, Gordona sp. SMKN14, (nocardioform actinomycetes) |
| GLP2 | Gordona sp. SMKN29, Gordona sp. SMKN15, (nocardioform actinomycetes) |
| GLP3 | nocardioform actinomycete sp. |
| b-AO233 | Betaproteobacterial ammonia-oxidizing bacteria |
| Nsp436 | Nitrosospira spp. |
| NspCL1_249 | Nitrosospira cluster 1 |
| NspCL2_458 | Nitrosospira cluster 2 |
| NspCL3_454 | Nitrosospira cluster 3 |
| NspCL4_446 | Nitrosospira cluster 4 |
| Nmo254 | Nitrosomonas |
| Nmo254a | Nitrosomonas |
| NmoCL6a_205 | Nitrosomonas cluster 6a |
| NmoCL6b_376 | Nitrosomonas cluster 6b |
| NmoCL7_439 | Nitrosomonas cluster 7 |
| NLIMI 91 | Nostocoida limicola I |
| NLIMII 175 | Nostocoida limicola II strains except strain Ben 70 |
| NLIMII 192 | Nostocoida limicola II strain Ben 70 |
| NLIMIII 301 | Nostocoida limicola III strains |
| NLIMIII 729 | Nostocoida limicola III strain Ben 220 |
| NLIMIII 830 | Nostocoida limicola III strains except Ben 220 |
| PAO651 (ACCBA651) | Most members of the Candidatus Accumulibacter cluster |
| GAOQ431 | Candidatus Competibacter phosphatis |
| GAOQ989 | Candidatus Competibacter phosphatis |
| AZA1006 | Most members of the Azoarcus cluster |
| RHC630 | Most Thauera, Zoogloea, and Rhodocyclus spp. |
| RHC143 | Most members of the Dechloromonas-Ferribacterium-Quadricoccus-Azonexus, the Azospira, and the Rhodocyclus-Propionivibrio-Accumulibacter lineages, Zoogloea spp., and few members of the Azoarcus-Thauera-Denitromonas lineage |
| ATDe442 | Activated sludge clones A33, H25, H30, H35, S3, S10, and S23 of the Azoarcus-Thauera-Denitromonas lineage |
| ATDe830 | Activated sludge clones A33, H25, H30, H35, S3, S10, and S23 of the Azoarcus-Thauera-Denitromonas lineage |
| S3-486 | activated sludge clone S3 |
| A33-587 | activated sludge clone A33 |
| ZOGLO828 | Zoogloea spp. |
| ZOGLO455 | Some members of the Zoogloea lineage (activated sludge clones H13, H11, H22, H10, H40, H27, and S21), not Z. ramigera and Z. resiniphila |
| ZORAM211 | Zoogloea ramigera |
| ZORAM441 | Zoogloea ramigera |
| RHAC855 | Rhodocyclus spp., most members of the Candidatus Accumulibacter cluster |
| ACCBA443 | Some members of the Candidatus Accumulibacter cluster |
| STEBA468 | Some members of the Sterolibacterium lineage (activated sludge clones S28, A13, S40, H12, H23, and H20) |
| STEBA635 | Few members of the Sterolibacterium lineage (activated sludge clones S28 and A13) |
| STEBA643 | Few members of the Sterolibacterium lineage (activated sludge clones S40, H12, H23, and H20) |
| STEBA214 | Few members of the Sterolibacterium lineage (clones SBR1001, SBR2080, and GC24) |
| QUACO135 | Quadricoccus australiensis, reactor clone PHOS-HE23 |
| BTWO663 | most Rhodocyclales, but not the Rhodocyclales environmental cluster 1, Zoogloea spp., and Dechlorosoma-Azospira cluster |
| TH3 (AZTHA222,RHC222) | Some members of the Azoarcus-Thauera-Denitromonas, Zoogloea, and Azovibrio lineages |
| TH14 (RHC175b) | Some Thauera, Azoarcus, Zoogloea, Sterolibacterium, and Azovibrio spp. |
| ATDe467 | Activated sludge clones A33, H25, H30, H35, S3, S10, and S23 of the Azoarcus-Thauera-Denitromonas lineage |
| ZOGLO1416 | Zoogloea spp. |
| ACCBA651 | most bacteria of the Candidatus Accumulibacter phosphatis cluster |
| ACCBA455 | Some members of the Candidatus Accumulibacter cluster |
| ACCBA846 | Most members of the Candidatus Accumulibacter cluster |
| STEBA448 | Some members of the Sterolibacterium lineage (activated sludge clones S28, A13, S40, H12, H23, and H20) |
| HHY | Haliscomenobacter hydrossis |
| TNI | Thiothrix nivea |
| LMU | Leucothrix mucor |
| 21N | Eikelboom type 021N strain II-26 |
| LDI | Leptothrix discophora |
| SNA | Sphaerotilus natans |
| PAO462 | Candidatus Accumulibacter phosphatis |
| Rc988 | Rhodocyclus spp., Candidatus Accumulibacter phosphatis, and related bacteria |
| ALBO577 | Alcaligenes, Bordetella and close relatives |
| Myc657 | Mycobacterium subdivision (mycolic acid-containing actinomycetes) |
| Ntcoc206 | Nitrococcus mobilis |
| Ntspn994 | Nitrospina gracilis |
| Nscry1004 | Nitrosomonas cryotolerans |
| Nscoc65 | Nitrosococcus oceani, Nitrosococcus halophilus |
| Nscoc1248 | Nitrosococcus oceani, Nitrosococcus halophilus |
| Sca1309 | genus Candidatus Scalindua |
| Scabr1114 | Candidatus Scalidua brodae |
| Amx368 | all ANAMMOX bacteria |
| BS820 | Candidatus Scalidua wagneri, Candidatus Scalidua sorokinii |
| NSMR76 | Nitrosomonas marina-like ammonia-oxidizing bacteria |
| NSMR34 | Nitrosospira tenius-like ammonia-oxidizing bacteria |
| Nmo218 | Nitrosomonas oligotropha-lineage |
| NITROSO4E | Betaproteobacterial ammonia-oxidizing bacteria |
| GB | novel gammaproteobacterial group |
| GB_G1 (GAOQ989) | novel gammaproteobacterial group |
| GB_G2 | novel gammaproteobacterial group |
| GB_1 and 2 | novel gammaproteobacterial group |
| GB_2 | novel gammaproteobacterial group |
| GB_3 | novel gammaproteobacterial group |
| GB_4 | novel gammaproteobacterial group |
| GB_5 | novel gammaproteobacterial group |
| GB_6 (Gam1019) | novel gammaproteobacterial group |
| GB_7 | novel gammaproteobacterial group |
| AMAR 839 | Amaricoccus spp. |
| SBR9-1a | Alphaproteobacterial SBR9 clone 1 (AY254694) |
| SBR9-1b | Alphaproteobacterial SBR9 clone 1 (AY254694) |
| Ntspa1431 | Sublineage I of the genus Nitrospira |
| Ntspa1151 | Sublineage II of the genus Nitrospira |
| Apr820 | Cand. “Anammoxoglobus propionicus” |
| E2d21002 | some Rhodobacteraceae |
| E1e3 1150 | some unclassified Alphaproteobacteria |
| Ualp-1109 | some unclassified Alphaproteobacteria |
| Sphm-0742 | some Sphingomonadales |
| Bete-1250 | some unclassified Bacteroidetes |
| MPA | Candidatus Microthrix |
| PPx3-1428 | Candidatus Alysiomicrobium bavaricum |
| Noli-644 | Candidatus Alysiosphaera europaea |
| MC2-649 | Candidatus Monilibacter batavus |
| Sita-649 | Candidatus Sphaeronema italicum |
| Combo-1031 | Candidatus Combothrix italica |
| Cate-1013 | Candidatus Catenimonas italica |
| MZ1 | Thauera spp. mzt1t |
| Actino-221 | Actinobacterial PAO |
| Actino-658 | Actinobacterial PAO |
| Bete-1419 | some unclassified Bacteroidetes |
| Chro-1137 | some Chromatiales |
| Caul-1262 | some Caulobacterales |
| Ubac-1430 | some unclassified Bacteria |
| Ubac-1241 | some unclassified Bacteria |
| uBet-0984 | some unclassified Betaproteobacteria |
| Ubet-0834 | some unclassified Betaproteobacteria |
| Ubet-0990 | some unclassified Betaproteobacteria |
| Rhoc-0998 | some Rhodocyclaceae |
| Rhoc-1425 | some unclassified Rhodocyclaceae |
| Thio-1032 | some Thiobacillus and some unclassified Betaproteobacteria |
| DEN67 | Methanol-utilizing denitrifying cluster |
| DEN124 | Acetate-denitrifying cluster |
| DEN581 | Acetate-denitrifying cluster |
| CteA | Comamonas testosteroni |
| Nm143-446-1 | Nitrosomonas sp. Nm143-related clones |
| Nm143-446-2 | Nitrosomonas sp. Nm143-related clones |
| Nspmar62 | Nitrospira marina-related clones |
| Nmar831 | Nitrosomonas marina-related clones |
| Nost993 | Filamentous Alphaproteobacteria |
| PPx1002 | Filamentous Alphaproteobacteria |
| EU25-1238 | Filamentous Chloroflexi |
| Bfu613 | Candidatus “Brocadia fulgida” |
