TABLE 3.
16S rRNA-targeted oligonucleotide probes
| Original probe name | Short name | Full namea | Sequence (5′-3′) | Microarray position | Specificity | Reference |
|---|---|---|---|---|---|---|
| CONT | AGG AAG GAA GGA AGG AAG | A1-F1, A48-F48 | Control oligonucleotide | This study | ||
| CONT-COMP | CTT CCT TCC TTC CTT CCT | Complementary to control oligonucleotide | This study | |||
| NONSENSE | AGA GAG AGA GAG AGA GAG | F47 | Nonbinding control | This study | ||
| EUB338 | EUB338 | S-D-Bact-0338-a-A-18 | GCT GCC TCC CGT AGG AGT | D25, F2 | Most Bacteria | 2 |
| EUB338II | EUB338II | S-*-BactP-0338-a-A-18 | GCA GCC ACC CGT AGG TGT | F3 | Phylum Planctomycetes | 6 |
| EUB338III | EUB338III | S-*-BactV-0338-a-A-18 | GCT GCC ACC CGT AGG TGT | F4 | Phylum Verrucomicrobia | 6 |
| UNIV1390 | UNIV1389a | S-D-Univ-1389-a-A-18 | ACG GGC GGT GTG TAC AAG | D26, F5 | Bacteria, not “Epsilonproteobacteria” | 78b |
| UNIV1390 | UNIV1389b | S-D-Univ-1389-b-A-18 | ACG GGC GGT GTG TAC AAA | F6 | Eucarya | 78b |
| UNIV1390 | UNIV1389c | S-D-Univ-1389-c-A-18 | ACG GGC GGT GTG TGC AAG | D34, F7 | Archaea | 78b |
| ARCH915 | ARCH917 | S-D-Arch-0917-a-A-18 | GTG CTC CCC CGC CAA TTC | D35 | Archaea | 67b |
| DELTA495a | S-C-dProt-0495-a-A-18 | AGT TAG CCG GTG CTT CCT | C2, E2 | Most “Deltaproteobacteria” | This study | |
| DELTA495b | S-*-dProt-0495-b-A-18 | AGT TAG CCG GCG CTT CCT | C3, E3 | Some “Deltaproteobacteria” | This study | |
| DELTA495c | S-*-dProt-0495-c-A-18 | AAT TAG CCG GTG CTT CCT | C4, E4 | Some “Deltaproteobacteria” | This study | |
| S-*-Ntspa-712-a-A-21 | NTSPA714 | S-*-Ntspa-714-a-A-18 | CCT TCG CCA CCG GCC TTC | D30 | Phylum Nitrospira, not Thermodesulfovibrio islandicus | 7 |
| LGC354A | LGC354a | S-*-Lgc-0354-a-A-18 | TGG AAG ATT CCC TAC TGC | A2 | Probes LGC354a, LGC354b, and LGC354c target together the phylum Firmicutes but not Desulfotomaculum and Desulfosporosinus | 44 |
| LGC354B | LGC354b | S-*-Lgc-0354-b-A-18 | CGG AAG ATT CCC TAC TGC | A3 | See above | 44 |
| LGC354C | LGC354c | S-*-Lgc-0354-c-A-18 | CCG AAG ATT CCC TAC TGC | A4 | See above | 44 |
| SRB385 | SRB385 | S-*-Srb-0385-a-A-18 | CGG CGT CGC TGC GTC AGG | C5, E5 | Many but not all deltaproteobacterial SRPs, Aerothermobacter spp., Thermomonospora spp., Actinobispora spp., Actinomadura spp., Thermoanaerobacter spp., Frankia spp., Clostridium spp., Streptosporangium spp., Nitrospira spp., Geodermatophilus spp., Nocardiopsis spp., and many more | 2 |
| SRB385Db | SRB385Db | S-*-Srb-0385-b-A-18 | CGG CGT TGC TGC GTC AGG | C6, E6 | Many but not all deltaproteobacterial SRPs, Geobacter spp., Pelobacter spp., Campylobacter spp., Saccharopolyspora spp., Acetivibrio spp., Syntrophus spp., Clostridium spp., Nitrospina spp., Chlorobium spp., and many more | 52 |
| DSBAC355 | DSBAC355 | S-*-Dsbac-0355-a-A-18 | GCG CAA AAT TCC TCA CTG | C7 | Most “Desulfobacterales” and “Syntrophobacterales” | 59 |
| DSB706 | S-*-Dsb-0706-a-A-18 | ACC GGT ATT CCT CCC GAT | C8 | Desulfotalea spp., Desulfosarcina sp., Desulforhopalus sp., Desulfocapsa spp., Desulfofustis sp., Desulfobacterium sp., Desulfobulbus spp., Thermodesulforhabdus sp. | This study | |
| DSS658 | DSS658 | S-*-Dsb-0658-a-A-18 | TCC ACT TCC CTC TCC CAT | C11 | Desulfostipes sp., Desulfobacterium sp., Desulfofrigus spp., Desulfofaba sp., Desulfosarcina sp., Desulfomusa sp. | 41 |
| DSR651 | DSR651 | S-*-Dsb-0651-a-A-18 | CCC CCT CCA GTA CTC AAG | C10 | Desulforhopalus sp., Desulfobacterium sp., Desulfofustis sp., Desulfocapsa sp., Desulfobulbus spp., Spirochaeta spp. | 41 |
| probe 804 | DSB804 | S-*-Dsb-0804-a-A-18 | CAA CGT TTA CTG CGT GGA | C9 | Desulfobacter spp., Desulfobacterium spp., Desulfofrigus spp., Desulfofaba sp., Desulfosarcina sp., Desulfostipes sp., Desulfococcus sp., Desulfobotulus sp., Desulforegula sp. | 13 |
| DSB230 | S-*-Dsb-0230-a-A-18 | CTA ATG GTA CGC AAG CTC | B6 | Desulfotalea spp., Desulforhopalus sp., Desulfocapsa spp., Desulfofustis sp., Desulfobacterium sp. | This study | |
| DSTAL131 | S-G-Dstal-0131-a-A-18 | CCC AGA TAT CAG GGT AGA | B9 | Desulfotalea spp. | This study | |
| DSTAL213 | S-G-Dstal-0213-a-A-18 | CCT CCC GAT ACA ATA GCT | B8 | See above | This study | |
| DSTAL645 | S-G-Dstal-0645-a-A-18 | CCA GTA CTC AAG CTC CCC | B10 | See above | This study | |
| DSTAL732 | S-G-Dstal-0732-a-A-18 | TAT CTG GCC AGA TGG TCG | B12 | See above | This study | |
| DSTAL835 | S-G-Dstal-0835-a-A-18 | GAA GCG ATT AAC CAC TCC | B11 | See above | This study | |
| DSRHP185 | S-*-Dsrhp-0185-a-A-18 | CCA CCT TTC CTG TTT CCA | B7 | Desulforhopalus spp. | This study | |
| DSBB228 | S-G-Dsbb-0228-a-A-18 | AAT GGT ACG CAG ACC CCT | B4 | Desulfobulbus spp. | This study | |
| probe 660 | DSBB660 | S-G-Dsbb-0660-a-A-18 | ATT CCA CTT TCC CCT CTG | B5 | See above | 13b |
| DSB985 | DSB986 | S-*-Dsb-0986-a-A-18 | CAC AGG ATG TCA AAC CCA | C28 | Desulfobacter spp., Desulfobacula sp., Desulfobacterium sp., Desulfospira sp., Desulfotignum sp. | 41b |
| DSB1030 | S-*-Dsb-1030-a-A-18 | CTG TCT CTG TGC TCC CGA | C27 | See above | This study | |
| DSB1240 | S-*-Dsb-1240-a-A-18 | TGC CCT TTG TAC CTA CCA | C34 | Desulfobacter spp., Desulfotignum sp. | This study | |
| DSB623 | DSB623a | S-*-Dsb-0623-a-A-18 | TCA AGT GCA CTT CCG GGG | C35 | Desulfobacter curvatus, Desulfobacter halotolerans, Desulfobacter hydrogenophilus, Desulfobacter postgatei, Desulfobacter vibrioformis | 9b |
| DSB623b | S-*-Dsb-0623-b-A-18 | TCA AGT GCA CTT CCA GGG | C36 | Desulfobacter sp., strain BG8, Desulfobacter sp. strain BG23 | This study | |
| DSB623 | DSBLA623 | S-S-Dsb.la-0623-a-A-18 | TCA AGT GCT CTT CCG GGG | C37 | Desulfobacter latus | 9b |
| DSBACL143 | S-G-Dsbacl-0143-a-A-18 | TCG GGC AGT TAT CCC GGG | C29 | Desulfobacula spp. | This study | |
| DSBACL225 | S-G-Dsbacl-0225-a-A-18 | GGT CCG CAA ACT CAT CTC | C30 | See above | This study | |
| DSBACL317 | S-G-Dsbacl-0317-a-A-18 | GAC CGT GTA CCA GTT CCA | C31 | See above | This study | |
| DSBACL1268 | S-G-Dsbacl-1268-a-A-18 | AGG GAT TCG CTT ACC GTT | C32 | See above | This study | |
| DSBACL1434 | S-G-Dsbacl-1434-a-A-18 | ATA GTT AGC CCA ACG ACG | C33 | See above | This study | |
| DSF672 | DSB674 | S-*-Dsb-0674-a-A-18 | CCT CTA CAC CTG GAA TTC | C20 | Desulfofrigus spp., Desulfofaba gelida, Desulfomusa hansenii | 55b |
| DSB220 | S-*-Dsb-0220-a-A-18 | GCG GAC TCA TCT TCA AAC | C25 | Desulfobacterium niacini, Desulfobacterium vacuolatum, Desulfobacterium autotrophicum, Desulfofaba gelida | This study | |
| DSBM1239 | S-*-Dsbm-1239-a-A-18 | GCC CGT TGT ACA TAC CAT | C26 | Desulfobacterium niacini, Desulfobacterium vacuolatum, Desulfobacterium autotrophicum | This study | |
| DSFRG211 | S-G-Dsfrg-0211-a-A-18 | CCC CAA ACA AAA GCT TCC | C22 | Desulfofrigus spp. | This study | |
| DSFRG445 | S-G-Dsfrg-0445-a-A-18 | CAT GTG AGG TTT CTT CCC | C23 | See above | This study | |
| DSFRG1030 | S-G-Dsfrg-1030-a-A-18 | TGT CAT CGG ATT CCC CGA | C24 | See above | This study | |
| DCC868 | DCC868 | S-*-Dsb-0868-a-A-18 | CAG GCG GAT CAC TTA ATG | C38 | Desulfosarcina sp., Desulfonema spp., Desulfococcus sp., Desulfobacterium spp., Desulfobotulus sp., Desulfostipes sp., Desulfomusa sp. | 9 |
| DSSDBM194 | S-*-DssDbm-0194-a-A-18 | GAA GAG GCC ACC CTT GAT | C40 | Desulfosarcina variabilis, Desulfobacterium cetonicum | This study | |
| DSSDBM217 | S-*-DssDbm-0217-a-A-18 | GGC CCA TCT TCA AAC AGT | C41 | See above | This study | |
| DSSDBM998 | S-*-DssDbm-0998-a-A-18 | TTC GAT AGG ATT CCC GGG | C39 | See above | This study | |
| DSSDBM1286 | S-*-DssDbm-1286-a-A-18 | GAA CTT GGG ACG GCT TTT | C42 | See above | This study | |
| DSC193 | DSC193 | S-*-Dsb-0193-a-A-18 | AGG CCA CCC TTG ATC CAA | C43 | Desulfosarcina variabilis | 55 |
| DSBMIN218 | S-S-Dsbm.in-0218-a-A-18 | GGG CTC CTC CAT AAA CAG | C44 | Desulfobacterium indolicum | This study | |
| DCC209 | DCC209 | S-S-Dcc.mv-0209-a-A-18 | CCC AAA CGG TAG CTT CCT | B3 | Desulfococcus multivorans | 55 |
| DSNISH179 | S-S-Dsn.ish-0179-a-A-18 | GGG TCA CGG GAA TGT TAT | C45 | Desulfonema ishimotonii | This study | |
| DSNISH442 | S-S-Dsn.ish-0442-a-A-18 | CCC CAG GTT CTT CCC ACA | C46 | See above | This study | |
| DSNISH1001 | S-S-Dsn.ish-1001-a-A-18 | CGT CTC CGG AAA ATT CCC | C47 | See above | This study | |
| DNMA657 | DSN658 | S-*-Dsn-0658-a-A-18 | TCC GCT TCC CTC TCC CAT | B2 | Desulfonema limicola, Desulfonema magnum | 20b |
| DSBOSA445 | S-S-Dsbo.sa-0445-a-A-18 | ACC ACA CAA CTT CTT CCC | C21 | Desulfobotulus sapovorans | This study | |
| DSMON95 | S-*-Dsmon-0095-a-A-18 | GTG CGC CAC TTT ACT CCA | C18 | Desulfomonile spp. | This study | |
| DSMON1421 | S-*-Dsmon-1421-a-A-18 | CGA CTT CTG GTG CAG TCA | C19 | See above | This study | |
| SYBAC986 | S-*-Sybac-0986-a-A-18 | CCG GGG ATG TCA AGC CCA | C17 | Desulfovirga adipica, Desulforhabdus amnigena, Syntrophobacter spp. | This study | |
| DSACI175 | S-G-Dsaci-0175-a-A-18 | CCG AAG GGA CGT ATC CGG | C16 | Desulfacinum spp. | This study | |
| DSACI207 | S-G-Dsaci-0207-a-A-18 | CGA ACA CCA GCT TCT TCG | C15 | See above | This study | |
| TDRNO448 | S-S-Tdr.no-0448-a-A-18 | AAC CCC ATG AAG GTT CTT | C13 | Thermodesulforhabdus norvegica | This study | |
| TDRNO1030 | S-S-Tdr.no-1030-a-A-18 | TCT CCC GGC TCC CCA ATA | C12 | See above | This study | |
| TDRNO1443 | S-S-Tdr.no-1443-a-A-18 | GAC ACA ATC GCG GTT GGC | C14 | See above | This study | |
| Probe 687 | DSV686 | S-*-Dsv-0686-a-A-18 | CTA CGG ATT TCA CTC CTA | E7 | “Desulfovibrionales” and other “Deltaproteobacteria” | 13b |
| DSV1292 | DSV1292 | S-*-Dsv-1292-a-A-18 | CAA TCC GGA CTG GGA CGC | E9 | Desulfovibrio litoralis, Desulfovibrio vulgaris, Desulfovibrio longreachensis, Desulfovibrio termitidis, Desulfovibrio desulfuricans, Desulfovibrio fairfieldensis, Desulfovibrio intestinalis, Desulfovibrio inopinatus, Desulfovibrio senezii, Desulfovibrio gracilis, Desulfovibrio halophilus, Bilophila wadsworthia | 41 |
| DSV698 | DSV698 | S-*-Dsv-0698-a-A-18 | TCC TCC AGA TAT CTA CGG | E8 | Desulfovibrio caledoniensis, Desulfovibrio dechloracetivorans, Desulfovibrio profundus, Desulfovibrio aespoeensis, Desulfovibrio halophilus, Desulfovibrio gracilis, Desulfovibrio longus, Desulfovibrio salexigens, Desulfovibrio zosterae, Desulfovibrio bastinii, Desulfovibrio fairfieldensis, Desulfovibrio intestinalis, Desulfovibrio piger, Desulfovibrio desulfuricans, Desulfovibrio termitidis, Desulfovibrio longreachensis, Desulfovibrio vietnamensis, Desulfovibrio alaskensis, Bilophila wadsworthia, Lawsonia intracellularis | 41b |
| DVDAPC872 | S-*-Dv.d.a.p.c-0872-a-A-18 | TCC CCA GGC GGG ATA TTT | E33 | Desulfovibrio caledoniensis, Desulfovibrio dechloracetivorans, Desulfovibrio profundus, Desulfovibrio aespoeensis | This study | |
| DVHO130 | S-*-Dv.h.o-0130-a-A-18 | CCG ATC TGT CGG GTA GAT | E36 | Desulfovibrio halophilus, Desulfovibrio oxyclinae | This study | |
| DVHO733 | S-*-Dv.h.o-0733-a-A-18 | GAA CTT GTC CAG CAG GCC | E37 | See above | This study | |
| DVHO831 | S-*-Dv.h.o-0831-a-A-18 | GAA CCC AAC GGC CCG ACA | E35 | See above | This study | |
| DVHO1424 | S-*-Dv.h.o-1424-a-A-18 | TGC CGA CGT CGG GTA AGA | E38 | See above | This study | |
| DVAA1111 | S-*-Dv.a.a-1111-a-A-18 | GCA ACT GGC AAC AAG GGT | E30 | Desulfovibrio africanus, Desulfovibrio aminophilus | This study | |
| DVGL199 | S-*-Dv.g.l-0199-a-A-18 | CTT GCA TGC AGA GGC CAC | E26 | Desulfovibrio gracilis, Desulfovibrio longus | This study | |
| DVGL445 | S-*-Dv.g.l-0445-a-A-18 | CCT CAA GGG TTT CTT CCC | E27 | See above | This study | |
| DVGL1151 | S-*-Dv.g.l-1151-a-A-18 | AAC CCC GGC AGT CTC ACT | E28 | See above | This study | |
| DVGL1421 | S-*-Dv.g.l-1421-a-A-18 | CGA TGT CGG GTA GAA CCA | E29 | See above | This study | |
| DSD131 | DSVAE131 | S-S-Dsv.ae-0131-a-A-18 | CCC GAT CGT CTG GGC AGG | E34 | Desulfovibrio aestuarii | 41 |
| DSV820 | S-*-Dsv-0820-a-A-18 | CCC GAC ATC TAG CAT CCA | E25, E31 | Desulfovibrio salexigens, Desulfovibrio zosterae, Desulfovibrio fairfieldensis, Desulfovibrio intestinalis, Desulfovibrio piger, Desulfovibrio desulfuricans | This study | |
| DVSZ849 | S-*-Dv.s.z-0849-a-A-18 | GTT AAC TTC GAC ACC GAA | E32 | Desulfovibrio salexigens, Desulfovibrio zosterae | This study | |
| DVIG448 | S-*-Dv.i.g-0448-a-A-18 | CGC ATC CTC GGG GTT CTT | E15 | Desulfovibrio gabonensis, Desulfovibrio indonesiensis | This study | |
| DVIG468 | S-*-Dv.i.g-0468-a-A-18 | CCG TCA GCC GAA GAC ACT | E16 | See above | This study | |
| DSV651 | S-*-Dsv-0651-a-A-18 | CCC TCT CCA GGA CTC AAG | E39 | Desulfovibrio fructosivorans, Desulfovibrio alcoholivorans, Desulfovibrio sulfodismutans, Desulfovibrio burkinensis, Desulfovibrio inopinatus | This study | |
| DVFABS153 | S-*-Dv.f.a.b.s-0153-a-A-18 | CGG AGC ATG CTG ATC TCC | E40 | Desulfovibrio fructosivorans, Desulfovibrio alcoholivorans, Desulfovibrio sulfodismutans, Desulfovibrio burkinensis | This study | |
| DVFABS653 | S-*-Dv.f.a.b.s-0653-a-A-18 | CAC CCT CTC CAG GAC TCA | E41 | See above | This study | |
| DVFABS1351 | S-*-Dv.f.a.b.s-1351-a-A-18 | GAG CAT GCT GAT CTC CGA | E42 | See above | This study | |
| DVLVT139 | S-*-Dv.1.v.t-0139-a-A-18 | GCC GTT ATT CCC AAC TCA | E17 | Desulfovibrio termitidis, Desulfovibrio longreachensis, Desulfovibrio vulgaris | This study | |
| DVLVT175 | S-*-Dv.l.v.t-0175-a-A-18 | AAA TCG GAG CGT ATT CGG | E18 | See above | This study | |
| DVLT131 | S-*-Dv.l.t-0131-a-A-18 | TCC CAA CTC ATG GGC AGA | E22 | Desulfovibrio termitidis, Desulfovibrio longreachensis | This study | |
| DVLT986 | S-*-Dv.l.t-0986-a-A-18 | TCC CGG ATG TCA AGC CTG | E23 | See above | This study | |
| DVLT1027 | S-*-Dv.l.t-1027-a-A-18 | TCG GGA TTC TCC GAA GAG | E21 | See above | This study | |
| DSM194 | S-G-Dsm-0194-a-A-18 | GAG GCA TCC TTT ACC GAC | E11 | Desulfomicrobium spp., Desulfobacterium macestii | This study | |
| DSV214 | DSM213 | S-G-Dsm-0213-a-A-18 | CAT CCT CGG ACG AAT GCA | E10 | See above | 41b |
| DSHRE830 | S-S-Dsh.re-0830-a-A-18 | GTC CTA CGA CCC CAA CAC | E12 | Desulfohalobium retbaense | This study | |
| DSHRE995 | S-S-Dsh.re-0995-a-A-18 | ATG GAG GCT CCC GGG ATG | E13 | See above | This study | |
| DSHRE1243 | S-S-Dsh.re-1243-a-A-18 | TGC TAC CCT CTG TGC CCA | E14 | See above | This study | |
| DFM228 | DFMI227a | S-*-DfmI-0227-a-A-18 | ATG GGA CGC GGA CCC ATC | A5 | Desulfotomaculum putei, Desulfotomaculum gibsoniae, Desulfotomaculum geothermicum, Desulfotomaculum thermosapovorans, Desulfotomaculum thermoacidovorans, Desulfotomaculum thermobenzoicum, Desulfotomaculum thermoacetoxidans, Desulfotomaculum australicum, Desulfotomaculum kuznetsovii, Desulfotomaculum thermocisternum, Desulfotomaculum luciae, Sporotomaculum hydroxybenzoicum | 9b |
| DFM228 | DFMI227b | S-*-Dfml-0227-b-A-18 | ATG GGA CGC GGA TCC ATC | A6 | Desulfotomaculum aeronauticum, Desulfotomaculum nigrificans, Desulfotomaculum reducens, Desulfotomaculum ruminis, Desulfotomaculum sapomandens, Desulfotomaculum halophilum | 9b |
| S-*-Dtm(cd)-0216-a-A-19 | DFMI210 | S-*-Dfml-0210-a-A-18 | CCC ATC CAT TAG CGG GTT | A7 | Some Desulfotomaculum spp. of clusters Ic and Idc | 25b |
| S-*-Dtm(bcd)-0230-a-A-18 | DFMI229 | S-*-Dfml-0229-a-A-18 | TAA TGG GAC GCG GAC CCA | A8 | Some Desulfotomaculum spp. of clusters Ib, Ic, and Idc | 25 |
| DFMIa641 | S-*-DfmIa-0641-a-A-18 | CAC TCA AGT CCA CCA GTA | A9 | Desulfotomaculum spp., (cluster Ia)c | This study | |
| DFMIb726 | S-*-Dfmlb-0726-a-A-18 | GCC AGG GAG CCG CTT TCG | A10 | Desulfotomaculum spp., Sporotomaculum hydroxybenzoicum (cluster Ib)c | This study | |
| DFMIc841 | S-*-DfmIc-0841-a-A-18 | GGC ACT GAA GGG TCC TAT | A11 | Desulfotomaculum spp. (cluster Ic)c | This study | |
| DFMIc1012 | S-*-DfmIc-1012-a-A-18 | CGT GAA ATC CGT GTT TCC | A12 | See above | This study | |
| DFMIc1119 | S-*-DfmIc-1119-a-A-18 | ACC CGT TAG CAA CTA ACC | A13 | See above | This study | |
| DFMIc1138 | S-*-DfmIc-1138-a-A-18 | GGC TAG AGT GCT CGG CTT | A14 | See above | This study | |
| DFMId436 | S-*-DfmId-0436-a-A-18 | CTT CGT CCC CAA CAA CAG | A15 | Desulfotomaculum spp. (cluster Id)c | This study | |
| DFMId625 | S-*-DfmId-0625-a-A-18 | TTT CAA AGG CAC CCC CGC | A16 | See above | This study | |
| DFMId996 | S-*-DfmId-0996-a-A-18 | CAC AGG CTG TCA GGG GAT | A17 | See above | This study | |
| DFMId1117 | S-*-DfmId-1117-a-A-18 | CCG CTG GCA ACT AAC CGT | A18 | See above | This study | |
| DFACE199 | S-S-Df.ace-0199-a-A-18 | GCA TTG TAA AGA GGC CAC | A20 | Desulfotomaculum spp. (cluster Ie)c | This study | |
| DFACE438 | S-S-Df.ace-0438-a-A-18 | CTG TTC GTC CAA TGT CAC | A19 | See above | This study | |
| DFACE995 | S-S-Df.ace-0995-a-A-18 | CAC AGC GGT CAC GGG ATG | A21 | See above | This study | |
| D-acet1027r | DFACE1028 | S-S-Df.ace-1028-a-A-18 | CTC CGT GTG CAA GTA AAC | A22 | See above | 68 |
| DFACE1436 | S-S-Df.ace-1436-a-A-18 | TGC GAG TTA AGT CAC CGG | A23 | See above | This study | |
| DFMIf126 | S-*-DfmIf-0126-a-A-18 | CTG ATA GGC AGG TTA TCC | A24 | Desulfotomaculum spp. (cluster If)d | This study | |
| DFMII1107 | S-*-DfmII-1107-a-A-18 | CTA AAT ACA GGG GTT GCG | A29 | Desulfosporosinus spp., Desulfotomaculum auripigmentum (cluster II)c | This study | |
| DFMII1281 | S-*-DfmII-1281-a-A-18 | GAG ACC GGC TTT CTC GGA | A28 | See above | This study | |
| TDSV601 | S-*-Tdsv-0601-a-A-18 | GCT GTG GAA TTC CAC CTT | D32 | Thermodesulfovibrio spp. | This study | |
| S-*-Tdsulfo-0848-a-A-18 | TDSV849 | S-*-Tdsv-0849-a-A-18 | TTT CCC TTC GGC ACA GAG | D33 | See above | 8 |
| TDSV1326 | S-*-Tdsv-1326-a-A-18 | CGA TTC CGG GTT CAC GGA | D31 | See above | This study | |
| TDSBM1282 | S-P-Tdsbm-1282-a-A-18 | TGA GGA GGG CTT TCT GGG | D27 | Thermodesulfobacterium spp., Geothermobacterium sp. | This study | |
| TDSBM353 | S-*-Tdsbm-0353-a-A-18 | CCA AGA TTC CCC CCT GCT | D28 | Thermodesulfobacterium spp. | This study | |
| TDSBM652 | S-*-Tdsbm-0652-a-A-18 | AGC CTC TCC GGC CCT CAA | D29 | See above | This study | |
| ARGLO37 | S-G-Arglo-0037-a-A-18 | CTT AGT CCC AGC CGG ATA | D37 | Archaeoglobus spp. | This study | |
| ARGLO276 | S-G-Arglo-0276-a-A-18 | GCC CGT ACG GAT CTT CGG | D38 | See above | This study | |
| ARGLO576 | S-G-Arglo-0576-a-A-18 | CCA GCC CGG CTA CGG ACG | D39 | See above | This study | |
| ARGLO972 | S-G-Arglo-0972-a-A-18 | CCC CGG TAA GCT TCC CGG | D40 | See above | This study | |
| DSBM168e | S-*-Dsbm-0168-a-A-18 | ACT TTA TCC GGC ATT AGC | Desulfobacterium niacini, Desulfobacterium vacuolatum | This study | ||
| DVHO588e | S-*-Dv.h.o-0588-a-A-18 | ACC CCT GAC TTA CTG CGC | Desulfovibrio halophilus, Desulfovibrio oxyclinae | This study | ||
| DVIG267e | S-*-Dv.i.g-0267-a-A-18 | CAT CGT AGC CAC GGT GGG | Desulfovibrio gabonensis, Desulfovibrio indonesiensis | This study | ||
| DVLT1425e | S-*-Dv.l.t-1425-a-A-18 | TCA CCG GTA TCG GGT AAA | Desulfovibrio termitidis, Desulfovibrio longreachensis | This study | ||
| DVGL228e | S-*-Dv.g.l-0228-a-A-18 | CAG CCA AGA GGC CTA TTC | Desulfovibrio gracilis, Desulfovibrio longus | This study | ||
| ARGLO390e | S-G-Arglo-0390-a-A-18 | GCA CTC CGG CTG ACC CCG | Archaeoglobus spp. | This study | ||
| DVLVT194f | S-*-Dv.l.v.t-0194-a-A-18 | AGG CCA CCT TTC CCC CGA | Desulfovibrio termitidis, Desulfovibrio longreachensis, Desulfovibrio vulgaris | This study | ||
| DVLVT222f | S-*-Dv.l.v.t-0222-a-A-18 | ACG CGG ACT CAT CCA TGA | See above | This study | ||
| DVCL1350f | S-*-Dv.c.l-1350-a-A-18 | GGC ATG CTG ATC CAG AAT | Desulfovibrio cuneatus, Desulfovibrio litoralis | This study | ||
| DFMIf489f | S-*-DfmIf-0489-a-A-18 | CCG GGG CTT ACT CCT ATG | Desulfotomaculum spp. (cluster If)d | This study |
a
Name of oligonucleotide probe based on the nomenclature of Alm et al. (1).
b
Length of oligonucleotide probe was adapted to the microarray format (18-mer).
c
Cluster designation(s) of gram-positive, spore-forming SRPs according to Stackebrandt et al. (65).
d
Desulfotomaculum halophilum and Desulfotomaculum alkaliphilum were assigned to new cluster If.
e
Probe was removed from the SRP microarray because no positive signal could be detected after hybridization with fluorescently labeled 16S rRNA gene amplificate of the perfect-match reference strain.
f
Probe was removed from the SRP microarray because it hybridized nonspecifically to many reference organisms that have mismatches in the 16S rRNA gene target site (see supplementary web material).