TABLE 1.
Sequences of oligonucleotides used as PCR primers and for FISH with corresponding concentrations of formamide and NaCl
Probe or primer | Sequence (5′-3′) | Target organisms | % Formamide in hybridization buffer | Concn of NaCl in washing buffer (mM) | Reference |
---|---|---|---|---|---|
EUB338 | GCTGCCTCCCGTAGGAGT | Bacteria | 0 | 900 | 1 |
ARC915 | GTGCTCCCCCGCCAATTCCT | Archaea | 20 | 225 | 53 |
MS821 | CGCCATGCCTGACACCTAGCGAGC | Methanosarcina | 30 | 112 | 45 |
MSMX860 | GGCTCGCTTCACGGCTTCCCT | Methanosarcinales | 30 | 112 | 45 |
NONa | ACTCCTACGGGAGGCAGC | NAb | NA | NA | 32 |
Arch21Fa | TCCGGTTGATCCYGSCRGc | Archaea | NA | NA | 9 |
ARC344Fa-Clamp | CGCCCGCCGCGCCCCGCGCCCGTCCCGCCGCCCCCGCCCG-ACGGGGYGCAGCAGc | Archaea | NA | NA | 45 |
GM4R | TACCTTGTTACGACTT | All organisms | NA | NA | 40 |
341F-Clamp | CGCCCGCCGCGCGCGGCGGGCGGGGCGGGGGCACGGGGGG-CCTACGGGAGGCAGCAG | Bacteria | NA | NA | 39 |
907R | CCGTCAATTCMTTTGAGTTT | Bacteria | NA | NA | 39 |
Used as negative control.
NA, not applicable.
Sequence modified from original publication.