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Probes targeting bacteria of relevance in wastewater treatment

Probe name Specificity
Gor596Gordonia (Gordona)
ACA652 (ACA23A)Acinetobacter
G.am1-439Gordona amarae group 1 strains
G.am205Gordona amarae
G.am2-439Gordona amarae group 2 strains
G123TThiothrix eikelboomii, T. nivea, T. unzii, T. fructosivorans, T. defluvii, Eikelboom type 021N group I, II, III
G1BEikelboom type 021N group I
G2MEikelboom type 021N group II
G3MEikelboom type 021N group III
Goam192Gordona amarae
H7-1014activated sludge clone H7
HoAc1402Acidobacteria, activated sludge clones A22, A34, H3, H44, S6
NB1000Nitrobacter spp.
NIT3Nitrobacter spp.
NmV (Ncmob)Nitrosococcus mobilis (Nitrosomonas) lineage
Nscoc128Nitrosococcus oceani, N. halophilus (Gammaproteobacteria)
Nse1472Nitrosomonas europea, N. halophila, N. eutropha, Kraftisried-Isolat Nm103
Nsm156Nitrosomonas spp., Nitrosococcus mobilis
Nso1225Betaproteobacterial ammonia-oxidizing bacteria
Nso190Betaproteobacterial ammonia-oxidizing bacteria
Nsv443Nitrosospira spp.
Ntcoc84Nitrococcus mobilis
Ntspa1026Nitrospira moscoviensis, activated sludge clones A4 and A11
Ntspa662genus Nitrospira
Ntspn693Nitrospina gracilis
OTU1-1415Zoogloea ramigera, activated sludge clones A16, H7, H10, H11, H13, H22, H27. H40, S21
OTU14-129Hyphomicrobium spp., activated sludge clones A7b, A39
OTU16-1027activated sludge clones H4, H6, H29, S7
OTU16-1350activated sludge clones H4, H6, H29, S7
OTU17-66activated sludge clones H46, S43
OTU2-132 (ATDe132)Activated sludge clones A33, H25, H30, H35, S3, S10, and S23 of the Azoarcus-Thauera-Denitromonas lineage
OTU2-467activated sludge clones A33, H25, H30, H35, S3, S10, S23
OTU25to31-1406some Anaerolineae
OTU26-650activated sludge clones A11b, A30, H1, H19
OTU28-1346activated sludge clones H39, S41
STEBA1426Some members of the Sterolibacterium lineage
OTU31-656activated sludge clones H8, S9
OTU32-208activated sludge clones A31, S47
OTU32-630activated sludge clones A31, S47
OTU3-445activated sludge clones A13, H12, H20, H23, S28, S40
OTU43/44-360Acidobacteria group a, activated sludge clones A22, A34, H3
OTU45-720activated sludge clones H44 and S6, soil clone C105, soil clone 11-25, Antarctic lake ice clone LB3-30
OTU4-645Alcaligenes latus, activated sludge clones A2, A26b
OTU6-178Brachymonas denitrificans, activated sludge clone A6b
PS-1Leptothrix spp., Sphaerotilus natans ATCC 29329
PSP-6Leptothrix discophora SP-6, L. cholodnii CCM1827, Leptothrix sp. strain NC-1
ZALZoogloea ramigera ATCC 19623
ZBEZoogloea ramigera ATCC 25935
ZRA23a (ZRA,ZOGLO647)Most members of the Zoogloea lineage, not Z. resiniphila
NEUMost halophilic and halotolerant Nitrosomonas spp.
Amx1900anaerobic ammonium-oxidizing bacteria, Candidatus `Brocadia anammoxidansapos and Candidatus `Kuenenia stuttgartiensisapos
Kst157Candidatus Kuenenia stuttgartiensis
Ban162 (B. anam.)Candidatus Brocadia anammoxidans
Amx820anaerobic ammonium-oxidizing bacteria, Candidatus `Brocadia anammoxidansapos and Candidatus `Kuenenia stuttgartiensisapos
RHC175aMost members of the Dechloromonas-Ferribacterium-Quadricoccus-Azonexus, the Azospira, and the Rhodocyclus-Propionivibrio-Accumulibacter lineages
RHC439Rhodocyclus spp., most member of the Candidatus Accumulibacter cluster, Azospira lineage
RHW456Bio-P enrichment culture clone R1
RHW991Bio-P enrichment culture clone R1
RHX456Candidatus Accumulibacter phosphatis (clone R6)
RHX991Candidatus Accumulibacter phosphatis (clone R6)
CHL 1851filamentous bacterium Eikelboom Type 1851
Gam1019phosphate accumulating bacteria (Gammaproteobacteria)
Gam1278phosphate accumulating bacteria (Gammaproteobacteria)
PAO846Candidatus Accumulibacter phosphatis
actino-1011Tetrasphaera japonica, enhanced biological phosphorus removal clone Ebpr19, Ebpr20 (Actinobacteria)
NSR826Nitrospira moscoviensis, freshwater Nitrospira spp.
NSR1156Nitrospira moscoviensis, freshwater Nitrospira spp.
NSR447Nitrospira spp.
MNP1nocardioform actinomycetes
MLPMycobacterium sp. SMKN23, Mycobacterium sp. SMKN22, (nocardioform actinomycetes)
DLPnocardioform actinomycete sp.
GLP1Gordona sp. SMKN27, Gordona sp. SMKN12, Gordona sp. SMKN17, Gordona sp. SMKN14, (nocardioform actinomycetes)
GLP2Gordona sp. SMKN29, Gordona sp. SMKN15, (nocardioform actinomycetes)
GLP3nocardioform actinomycete sp.
b-AO233Betaproteobacterial ammonia-oxidizing bacteria
Nsp436Nitrosospira spp.
NspCL1_249Nitrosospira cluster 1
NspCL2_458Nitrosospira cluster 2
NspCL3_454Nitrosospira cluster 3
NspCL4_446Nitrosospira cluster 4
Nmo254Nitrosomonas
Nmo254aNitrosomonas
NmoCL6a_205Nitrosomonas cluster 6a
NmoCL6b_376Nitrosomonas cluster 6b
NmoCL7_439Nitrosomonas cluster 7
NLIMI 91Nostocoida limicola I
NLIMII 175Nostocoida limicola II strains except strain Ben 70
NLIMII 192Nostocoida limicola II strain Ben 70
NLIMIII 301Nostocoida limicola III strains
NLIMIII 729Nostocoida limicola III strain Ben 220
NLIMIII 830Nostocoida limicola III strains except Ben 220
PAO651 (ACCBA651)Most members of the Candidatus Accumulibacter cluster
GAOQ431Candidatus Competibacter phosphatis
GAOQ989Candidatus Competibacter phosphatis
AZA1006Most members of the Azoarcus cluster
RHC630Most Thauera, Zoogloea, and Rhodocyclus spp.
RHC143Most 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
ATDe442Activated sludge clones A33, H25, H30, H35, S3, S10, and S23 of the Azoarcus-Thauera-Denitromonas lineage
ATDe830Activated sludge clones A33, H25, H30, H35, S3, S10, and S23 of the Azoarcus-Thauera-Denitromonas lineage
S3-486activated sludge clone S3
A33-587activated sludge clone A33
ZOGLO828Zoogloea spp.
ZOGLO455Some members of the Zoogloea lineage (activated sludge clones H13, H11, H22, H10, H40, H27, and S21), not Z. ramigera and Z. resiniphila
ZORAM211Zoogloea ramigera
ZORAM441Zoogloea ramigera
RHAC855Rhodocyclus spp., most members of the Candidatus Accumulibacter cluster
ACCBA443Some members of the Candidatus Accumulibacter cluster
STEBA468Some members of the Sterolibacterium lineage (activated sludge clones S28, A13, S40, H12, H23, and H20)
STEBA635Few members of the Sterolibacterium lineage (activated sludge clones S28 and A13)
STEBA643Few members of the Sterolibacterium lineage (activated sludge clones S40, H12, H23, and H20)
STEBA214Few members of the Sterolibacterium lineage (clones SBR1001, SBR2080, and GC24)
QUACO135Quadricoccus australiensis, reactor clone PHOS-HE23
BTWO663most 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.
ATDe467Activated sludge clones A33, H25, H30, H35, S3, S10, and S23 of the Azoarcus-Thauera-Denitromonas lineage
ZOGLO1416Zoogloea spp.
ACCBA651most bacteria of the Candidatus Accumulibacter phosphatis cluster
ACCBA455Some members of the Candidatus Accumulibacter cluster
ACCBA846Most members of the Candidatus Accumulibacter cluster
STEBA448Some members of the Sterolibacterium lineage (activated sludge clones S28, A13, S40, H12, H23, and H20)
HHYHaliscomenobacter hydrossis
TNIThiothrix nivea
LMULeucothrix mucor
21NEikelboom type 021N strain II-26
LDILeptothrix discophora
SNASphaerotilus natans
PAO462Candidatus Accumulibacter phosphatis
Rc988Rhodocyclus spp., Candidatus Accumulibacter phosphatis, and related bacteria
ALBO577Alcaligenes, Bordetella and close relatives
Myc657Mycobacterium subdivision (mycolic acid-containing actinomycetes)
Ntcoc206Nitrococcus mobilis
Ntspn994Nitrospina gracilis
Nscry1004Nitrosomonas cryotolerans
Nscoc65Nitrosococcus oceani, Nitrosococcus halophilus
Nscoc1248Nitrosococcus oceani, Nitrosococcus halophilus
Sca1309genus Candidatus Scalindua
Scabr1114Candidatus Scalidua brodae
Amx368all ANAMMOX bacteria
BS820Candidatus Scalidua wagneri, Candidatus Scalidua sorokinii
NSMR76Nitrosomonas marina-like ammonia-oxidizing bacteria
NSMR34Nitrosospira tenius-like ammonia-oxidizing bacteria
Nmo218Nitrosomonas oligotropha-lineage
NITROSO4EBetaproteobacterial ammonia-oxidizing bacteria
GBnovel gammaproteobacterial group
GB_G1 (GAOQ989)novel gammaproteobacterial group
GB_G2novel gammaproteobacterial group
GB_1 and 2novel gammaproteobacterial group
GB_2novel gammaproteobacterial group
GB_3novel gammaproteobacterial group
GB_4novel gammaproteobacterial group
GB_5novel gammaproteobacterial group
GB_6 (Gam1019)novel gammaproteobacterial group
GB_7novel gammaproteobacterial group
AMAR 839Amaricoccus spp.
SBR9-1aAlphaproteobacterial SBR9 clone 1 (AY254694)
SBR9-1bAlphaproteobacterial SBR9 clone 1 (AY254694)
Ntspa1431Sublineage I of the genus Nitrospira
Ntspa1151Sublineage II of the genus Nitrospira
Apr820Cand. “Anammoxoglobus propionicus”
E2d21002some Rhodobacteraceae
E1e3 1150some unclassified Alphaproteobacteria
Ualp-1109some unclassified Alphaproteobacteria
Sphm-0742some Sphingomonadales
Bete-1250some unclassified Bacteroidetes
MPACandidatus Microthrix
PPx3-1428Candidatus Alysiomicrobium bavaricum
Noli-644Candidatus Alysiosphaera europaea
MC2-649Candidatus Monilibacter batavus
Sita-649Candidatus Sphaeronema italicum
Combo-1031Candidatus Combothrix italica
Cate-1013Candidatus Catenimonas italica
MZ1Thauera spp. mzt1t
Actino-221Actinobacterial PAO
Actino-658Actinobacterial PAO
Bete-1419some unclassified Bacteroidetes
Chro-1137some Chromatiales
Caul-1262some Caulobacterales
Ubac-1430some unclassified Bacteria
Ubac-1241some unclassified Bacteria
uBet-0984some unclassified Betaproteobacteria
Ubet-0834some unclassified Betaproteobacteria
Ubet-0990some unclassified Betaproteobacteria
Rhoc-0998some Rhodocyclaceae
Rhoc-1425some unclassified Rhodocyclaceae
Thio-1032some Thiobacillus and some unclassified Betaproteobacteria
DEN67Methanol-utilizing denitrifying cluster
DEN124Acetate-denitrifying cluster
DEN581Acetate-denitrifying cluster
CteAComamonas testosteroni
Nm143-446-1Nitrosomonas sp. Nm143-related clones
Nm143-446-2Nitrosomonas sp. Nm143-related clones
Nspmar62Nitrospira marina-related clones
Nmar831Nitrosomonas marina-related clones
Nost993Filamentous Alphaproteobacteria
PPx1002Filamentous Alphaproteobacteria
EU25-1238Filamentous Chloroflexi
Bfu613Candidatus “Brocadia fulgida”
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    • Primer
    • Probes used for FISH