Table 3.

Primers used for the quantification of the specific bacterial divisions’ expression by real-time PCR

Target species	Primer sequence (5 → 3)	Annealing temp (°C)	Product size (bp)	Reference
Total bacteria	F: CGGYCCAGACTCCTACGGG R: TTACCGCGGCTGCTGGCAC	60.0	130	Guo et al. (2008)
Firmicutes	F: GGAGYATGTGGTTTAATTCGAAGCA R: AGCTGACGACAACCATGCAC	64.5	126
Bacteroidetes	F: GGARCATGTGGTTTAATTCGATGAT R: AGCTGACGACAACCATGCAG	60.0	126
Lactobacillus spp.	F: AGCAGTAGGGAATCTTCCA R: CACCGCTACACATGGAG	64.5	341	Walter et al. (2001)
Enterococcus spp.	F: CCCTTATTGTTAGTTGCCATCATT R: ACTCGTTGTACTTCCCATTGT	59.6	144	Rinttilä et al. (2004)
Streptococcus spp.	F: AGAGTTTGATCCTGGCTCAG R: GTTAGCCGTCCCTTTCTGG	56.8	485	Franks et al. (1998)
Clostridium cluster I	F: ATGCAAGTCGAGCGAKG R: TATGCGGTATTAATCTYCCTTT	60.0	120	Rinttilä et al. (2004)
Clostridium cluster IV	F: GCACAAGCAGTGGAGT R: CTTCCTCCGTTTTGTCAA	60.0	230	Matsuki et al. (2004)
Clostridium cluster XIVa	F: AAATGACGGTACCTGACTAA R: CTTTGAGTTTCATTCTTGCGAA	60.0	440	Matsuki et al. (2002)
Bifidobacterium	F: TCGCGTCYGGTGTGAAAG R: CCACATCCAGCRTCCAC	56.9	243	Rinttilä et al. (2004)
Enterobacteriaceae	F: CATTGACGTTACCCGCAGAAGAAGC R: CTCTACGAGACTCAAGCTTGC	62.5	195	Bartosch et al. (2004)