TABLE 1.

Primers used for PCR amplification

PrimeraTarget sitebSequence (5′ to 3′)SpecificityReference
341F-GCc341-357CCT ACG GGA GGC AGC AGMost Bacteria42
907RM907-926CCG TCA ATT CMT TTG AGT TTMost known organisms42
ARC344F-GC344-363ACG GGG YGC AGC AGG CGC GAMost Archaea47
ARC915R915-934GTG CTC CCC CGC CAA TTC CTMost Archaea55
CYA359F-GC359-378GGG GAA TYT TCC GCA ATG GGCyanobacteria and chloroplasts46
CYA781R(a)d781-805GAC TAC TGG GGT ATC TAA TCC CATTCyanobacteria and chloroplasts46
CYA781R(b)d781-805GAC TAC AGG GGT ATC TAA TCC CTTTCyanobacteria and chloroplasts46
  • a F (foward) and R (reverse) indicate the orientations of the primers in relation to the rRNA.

  • b Positions are given according to the E. coli numbering of Brosius et al. (10).

  • c GC is a 40-nucleotide GC-rich sequence attached to the 5′ end of the primer. The GC sequence is 5′-CGC CCG CCG CGC CCC GCG CCC GTC CCG CCG CCC CCG CCC-3′.

  • d Reverse primer CYA781R is an equimolar mixture of CYA781R(a) and CYA781R(b).