Table 1.

A list of 16S rRNA-targeted oligonucleotide probes used in this study

ProbeSpecificitySequence of probe (5′-3′)Target siteaFAb(%)NaClc (mM)Reference(s)
EUB338DomainBacteria GCTGCCTCCCGTAGGAGT338–355200.166 1
SRB385SRB of the delta Proteobacteria plus several gram-positive bacteria (e.g., Clostridiumspp.)CGGCGTCGCTGCGTCAGG385–402300.071 3,39
SRB385DbFamily Desulfobacteriaceae(except for Desulfobulbus spp.) plus some non-sulfate-reducing bacteria (e.g., Myxococcus xanthus andPelobacter acetylenicus)CGGCGTTGCTGCGTCAGG385–402300.071 38
SRB687 Desulfovibrio spp. plus members of the generaGeobacter, Desulfomonas,Desulfuromonas, Desulfomicrobium,Bilophila, andPelobacter TACGGATTTCACTCCT687–702100.386 15
SRB660 Desulfobulbusspp.GAATTCCACTTTCCCCTCTG660–679300.071 15
SRB129 Desulfobacteriumspp.TGCGCGGACTCATCTTCAAA221–240100.386 15
SRB221 Desulfobacterspp.CAGGCTTGAAGGCAGATT129–146200.166 15
  • a 16S rRNA position according toEscherichia coli numbering.

  • b Formamide concentration in the hybridization buffer.

  • c Sodium chloride concentration in the washing buffer.