Table 1.
Primers used and conditions for denaturing gradient gel electrophoresis (DGGE) analysis
| Primer | Primer sequence (5'-3') | Amplicon size (bp) | Annealing temperature (°C) | DGGE gradient (%) | Target group | Reference |
|---|---|---|---|---|---|---|
| V6-V8: F968-GC V6-V8: R1401 |
GC clampa-AACGCGAAGAACCT CGGTGTGTACAAGACCC |
489 | 55 | 45-55 (feces) 40-65 (biopsies) |
Eubacteria | This study |
| g- Bifid F g-Bifid R-GC |
CTCCTGGAAACGGGTGG GC clampa-GGTGTTCTTCCCGATATCTACA |
596 | 65 | 45-60 | Bifidobacterium | This study |
| Lac1 Lac2GC |
AGCAGTAGGGAATCTTCCA GC clampa - ATTYCACCGCTACACATG |
380 | 61 | 35-50 (feces) 35-70 (biopsies) |
Lactobacillus groupb | [24] |
| Bif164-f Bif662-GC-r |
GGGTGGTAATGCCGGATG GC clamp a- CCACCGTTACACCGGGAA |
520 | 62 | 45-55 | Bifidobacterium | [47] |
| Bif164-GC-f Bif662-r |
GC clamp a - GGGTGGTAATGCCGGATG CCACCGTTACACCGGGAA |
520 | 62 | 45-55 | Bifidobacterium | [47] |
aGC clamp sequence: CGCCCGCCGCGCCCCGCGCCCGGCCCGCCGCCCCCGCCCC.
bLactobacillus group comprises the genera Lactobacillus, Leuconostoc, Pediococcus and Weisella.