Table 1.

Oligonucleotide probes used in this study

ProbeSpecificityProbe sequence (5′-3′)Target sitea (16S rRNA positions)% Formamide in bufferbHybridization tempb(°C)NaCl in wash buffer (mM)Reference
EUB338BacteriaGCTGCCTCCCGTAGGAGT338–3550469002
MA-221Type II MBGGACGCGGGCCGATCTTTCG221–24035*55*807
M-450Type II MBATCCAGGTACCGTCATTATC450–47030*4611216
M-84cType I MBCCACTCGTCAGCGCCCGA84–103204622516
M-705cCTGGTGTTCCTTCAGATC705–724
Mcell-1026M. palustrisGTTCTCGCCACCCGAAGT1026–1043045–50900This study
Mcell-181M. palustrisTCTTTCTCCTTGCGGACG181–198045–50900This study
H158dM. palustrisGGTATTAATCCAAGTTTC158–175045–50900This study
  • a Position numbers refer to the E. coli 16S rRNA sequence.

  • b *, Optimal hybridization conditions determined in this study.

  • c Probes M-84 and M-705 have been used in conjunction.

  • d Helper probe.