Table 4

Primer sets used in this study for the specific amplification of ciliate V4-SSU rRNA fragments using a two-step (nested) PCR reaction
Primer Primer sequences Reference
1. Reaction: PCR ciliate specific primers
Cil F 5′-TGGTAGTGTATTGGACWACCA-3′ [105]
Cil R1 5′-TCTGATCGTCTTTGATCCCTT-3′ [105]
Cil R2 5′-TCTRATCGTCTTTGATCCCCTA-3′ [105]
Cil R3 5′-TCTGATTGTCTTTGATCCCCT-3′ [105]
2. Reaction: PCR hyper variable V4-region
Linker sequences Key MID Primer Primer sequences Reference
5′-CGTATCGCCTCCCTCGCGCCA TCAG MID TAReuk454FWD1 5′-CCAGCASCYGCGGTAATTCC-3′ [16]
5′-CGTATCGCCTCCCTCGCGCCA TCAG MID TAReukREV3 5′-ACTTTCGTTCTTGATYRA-3′ [16]

Stock et al.

Stock et al. BMC Microbiology 2013 13:150   doi:10.1186/1471-2180-13-150

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