Bacterial group

Primer

Reference

q-PCR conditions

Total bacteria

F-Eub 338 (ACTCCTACGGGAGGCAGCAG)

R-Eub 518 (ATTACCGCGGCTGCTGG)

[26]

Initial denaturation: 1 cycle at 50˚C for 2 min and 95˚C for 10 min. Primer annealing and product elongation: 40 cycles at 95˚C for 15 s and 60˚C for 1 min.

Lactobacilli

F-lacto (GAGGCAGCAGTAGGGAATCTTC)

R-lacto (GGCCAGTTACTACCTCTATCCTTCTTC)

[27]

Idem

Enterobacteria

F5 (ATGGCTGTCGTCAGCTCGT)

R5 (CCTACTTCTTTTGCAACCCACTC)

[28]

Idem

Bacteroides

AllBac296F (GAGAGGAAGGTCCCCCAC)

AllBac412R (CGCTACTTGGCTGGTTCAG)

[29]

Idem

C. coccoides/ E. rectale group

g-Ccoc-F (AAATGACGGTACCTGACTAA)

g-Ccoc-R (CTTTGAGTTTCATTCTTGCGAA)

[30]

Initial denaturation: 94˚C for 5 min. Primer annealing and product elongation: 40 cycles at 94˚C for 20 s, 50˚C for 20 s, and 72˚C for 1 min.

C. leptum

sg-Clept-F (GCACAAGCAGTGGAGT)

sg-Clept-R3 (CTTCCTCCGTTTTGTCAA)

[30]

Idem

Escherichia/ Shigella group

F5 (GTTAATACCTTTGCTCATTGA)

R5 (ACCAGGGTATCTAATCCTGTT)

[31]

Initial denaturation: 95˚C for 10 min. Primer annealing and product elongation: 35 cycles at 95˚C for15 s, 60˚C for 20 s, and 72˚C for 30 s.