TABLE 1.
Primers and probe sequences used in this studya
| Method and primer or probe | Nucleotide sequence (5′-3′)b | Reference |
|---|---|---|
| Quantitative PCR | ||
| ARC787F | ATT AGA TAC CCS BGT AGT CC | 27 |
| ARC915F | (FAM)-AGG AAT TGG CGG GGG AGC AC-(TAMRA) | 27 |
| ARC1059R | GCC ATG CAC CWC CTC T | 27 |
| Nested PCR (DGGE and cloning) | ||
| Ar3F | TTC CGG TTG ATC CTG CCG GA | 10 |
| Ar9R | CCC GCC AAT TCC TTT AAG TTT C | 10 |
| 1492R | GGT TAC CTT GTT ACG ACT T | 12 |
| Parch340F-GCc | CCC TAC GGG GYG CAS CAG | 21 |
| 519R | TTA CCG CGG CKG CTG | 21 |
a
All of the primers and DNA probes used in this study were purchased from IDT (Coralville, IA).
b
FAM, 6-carboxyfluorescein; TAMRA, 6-carboxy-tetramethylrhodamine.
c
For DGGE, this primer has the following GC-clamp at the 5′ end: CGCCCGCCGCGCGCGGCGGGCGGGGCGGGGGCACGGGGGG (19).