Primer Name

Primer sequence (5’-3’)

Target gene

Molecular analysis

Thermal Profile

Reference

515F

GTG CCA GCM GCC GCG G

universal 16S rRNAbacterial gene

qPCR

95˚C, 3 min; 40 × (95˚C, 30s; 55˚C, 30 s; 72˚C, 30 s with plate read); Melt curve 65.0˚C to 95.0˚C, increment 0.5˚C, 0:05 + plate read

(Stubner 2002)

[1]

907R

CCG TCA ATT CMT TTR AGT TT

CrenamoA23f

ATGGTCTGGCTWAGACG

crenarchaeal amoA

DGGE

94˚C, 5 min; 35 × (94˚C, 30 s; 56˚C, 45 s; 72˚C, 45 s); 72˚C, 8 min; hold at 4˚C

(Tourna et al. 2008)

[2]

CrenamoA616r

GCCATCCATCTGTATGTCCA

­­­­amoA-1F^#

GGG GTT TCT ACT GGTGGT

bacterial amoA

qPCR/DGGE

95˚C, 3 min; 35 × (95˚C, 30s; 55˚C, 30 s; 72˚C, 45 s with plate read); Melt curve 65.0˚C to 95.0˚C, increment 0.5˚C, 0:05 + plate read

(Avrahami et al. 2003)

[3] Avrahami, Liesack & Conrad 2003)

amoA-2R

CCC CTC GGG AAA GCC TTC TTC