Table 1.
Characteristics of primer for PCR amplification, sequencing (MiSeq Technology) and real-time PCR
| Primers | Sequence (5′ to 3′) | Reference |
|---|---|---|
| PCR amplification | ||
| Forward 515F | AATGATACGGCGACCACCGAGATCTACACTATGGTAATTGTGTGCCAGCMGCCGCGGTAA1 | Caporaso et al. (2012) |
| Reverse 806R | CAAGCAGAAGACGGCATACGAGATXXXXXXAGTCAGTCAGCCGGACTACHVGGGTWTCTAAT2 | |
| Sequencing | ||
| Read 1 | (TATGGTAATT)6a (GT)7a (GTGCCAGCMGCCGCGGTAA)8a | |
| Read 2 | (AGTCAGTCAG)6b (CC)7b (GGACTACHVGGGTWTCTAAT)8b | |
| Index | (ATTAGAWACCCBDGTAGTCC)6c (GG)7c (CTGACTGACT)8c | |
| RT-PCR | Schmidberger et al. 2013 | |
| RhlA | ||
| Forward | F 5′-GATCGAGCTGGACGACAAGTC-3′ | |
| Reverse | R 5-GCTGATGGTTGCTGGCTTTC-3′ | |
| RhlC | ||
| Forward | F 5′-ATCCATCTCGACGGACTGAC-3′ | |
| Reverse | R 5′-GTCCACGTGGTCGATGAAC-3′ | |
| PAH-RHDα GN | Cébron et al. 2008 | |
| Forward | GAG ATG CAT ACC ACG TKG GTT GGA | |
| Reverse | AGC TGT TGT TCG GGA AGA YWG TGC MGT T | |
| PAH-RHDα GP | ||
| Forward | CGG CGC CGA CAA YTT YGT NGG | |
| Reverse | GGG GAA CAC GGT GCC RTG DAT RAA | |
| 16 S rDNA | ||
| 968 Forward | AAC GCG AAG AAC CTT AC | |
| 1401 Reverse | CGG TGT GTA CAA GAC CC | |
1Containing 5′ Illumina adapter, forward primer pad, forward primer linker, and forward primer sequence
2Containing reverse complement of 3′ Illumina adapter, golay barcode, reverse primer pad, reverse primer linker, and reverse primer
6aforward primer pad
6breverse primer pad
6creverse complement of reverse primer
7aforward primer linker
7breverse primer linker
7creverse complement of reverse primer linker
8aforward primer
8breverse primer
8creverse complement of reverse primer pad