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. 2022 Apr 11;19(8):4592. doi: 10.3390/ijerph19084592

Table 2.

Oligonucleotide probes used in the study.

Probe Sequence Target rRNA Specificity FA **
[%]
EUB338 5’-GCT GCC TCC CGT AGG AGT-3’ 16S Most bacteria 35
EUB338II 5’-GCA GCC ACC CGT AGG TGT-3’ 16S Planctomycetales 35
EUB338III 5’-GCT GCC ACC CGT AGG TGT-3’ 16S Verrucomicrobiales 35
NON338 5’-ACT CCT ACG GGA GGC AGC-3’ 16S Control probe complementary to EUB338 35
ALF968 5’-GGT AAG GTT CTG CGC GTT-3’ 16S Alphaproteobacteria, except of Rickettsiales 20
BET42a 5’-GCC TTC CCA CTT CGT TT-3’ 23S Betaproteobacteria 35
5’-GCC TTC CCA CAT CGT TT-3’ *
GAM42a 5’-GCC TTC CCA CAT CGT TT-3’ 23S Gammaproteobacteria 35
5’-GCC TTC CCA CTT CGT TT-3’ *
DELTA495a 5’-AGT TAG CCG GTG CTT CCT-3’ 16S Most Deltaproteobacteria 35
5’-AGT TAG CCG GTG CTT CTT-3’ * and most Gemmatimonadetes
DELTA495b 5’-AGT TAG CCG GCG CTT CCT-3’ 16S Some Deltaproteobacteria 35
5’-AGT TAG CCG GCG CTT CKT-3’ *
DELTA495c 5’-AAT TAG CCG GTG CTT CCT-3’ 16S Some Deltaproteobacteria 35
5’-AAT TAG CCG GTG CTT CTT-3’ *
CF319a 5’-TGG TCC GTG TCT CAG TAC-3’ 16S Most Flavobacteria, some Bacteroidetes, some Sphingobacteria 35
HGC69a 5’-TAT AGT TAC CAC CGC CGT-3’ 23S Actinobacteria (high G+C Gram-positive bacteria) 25
5’-TAT AGT TAC GGC CGC CGT-3’ *

* Unlabelled competitor ** Formamide FA [%]: formamide concentration in the hybridisation buffer to ensure specific detection of target organisms.