TABLE 1.
Primers used in cloning and ecotype-specific qPCR of pufMa
| Target | Samples | Forward primer | Reference | Reverse primer | Reference | Length (bp)b | Temp (°C)c |
|---|---|---|---|---|---|---|---|
| All pufM genes | River, Dec. 2001 | pufLF (CTKTTCGACTTCTGGGTSGG) | 24 | pufM750R (CCCATGGTCCAGCGCCAGAA) | 1 | 1,500 | 58 |
| All pufM genes | River, Aug. 2002 | pufLF | 24 | pufM750R | 1 | 1,500 | 58 |
| All pufM genes | River, Aug. 2002 cDNA | pufM557F (CGCACCTGGACTGGAC) | 1 | pufM750R | 1 | 233 | 58 |
| All pufM genes | Bay, Aug. 2002 | pufM557F | 1 | pufM_WAW (AYNGCRAACCACCANGCCCA) | 40 | 277 | 56 |
| Rhodoferax-like pufM genes | All qPCR samples | RfxF2 (TGGACGGCCGCATTCTCA) | This study | RfxR2 (GCTCAATTTCGCGTTCACCACCAA) | This study | 156 | 60 |
| Rhodobacter-like pufM genes | All qPCR samples | RbaF1 (TGGACGAACCTGTTCAGC) | This study | RbaR1 (CAACTCGCGGTCGCC) | This study | 152 | 50 |
| gammaproteobacterial pufM genes | All qPCR samples | DelMGF1 (ACCGCCGCCTTCTCCAT) | This study | DelMGR1 (CTAGCTCCCGATCGCCACCATA) | This study | 151 | 57 |
| 16S rRNA genes, all bacteria | All qPCR samples | BACT1369F (CGGTGAATACGTTCYCGG) | 36 | PROK1541R (AAGGAGGTGATCCRGCCGCA) | 36 | 192 | 60 |
a
The sequence of each primer is next to the name in parentheses.
b
PCR product length in base pairs.
c
Annealing temperature.