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Table 2 Gene copy (GC) number of bacterial groups in TDC reactors of model 2 during antibiotic treatment [A, B and E] and recovery [F] periods

From: Clostridium difficile colonization and antibiotics response in PolyFermS continuous model mimicking elderly intestinal fermentation

  Total 16S rRNA gene Bacteroides spp. Entero-bacteriaceae Lactobacillus spp. Bifidobacterium spp. F. prausnitzii Clostridium cluster IV Roseburia spp./E. rectale
Period A (CRO I)
 CR 11.3 ± 0.2 10.3 ± 0.1 9.8 ± 0.2 7.3 ± 0.3 8.4 ± 0.3 9.0 ± 0.1 9.8 ± 0.2 7.4 ± 0.1
 TR1 11.2 ± 0.2 10.1 ± 0.1 9.7 ± 0.1 7.3 ± 0.2 8.3 ± 0.4 8.9 ± 0.1 9.7 ± 0.2 7.4 ± 0.1
 TR3 11.4 ± 0.07 10.1 ± 0.1 9.8 ± 0.3 7.5 ± 0.1 8.2 ± 0.1 8.9 ± 0.2 9.5 ± 0.5 7.4 ± 0.1
Period B (CRO II)
 CR 11.3 ± 0.4 10.3 ± 0.5 9.6 ± 0.3 8.3 ± 0.3 8.2 ± 0.2 8.9 ± 0.3 9.1 ± 0.2 6.5 ± 0.1
 TR1 11.3 ± 0.04 10.6 ± 0.3 9.7 ± 0.2 8.3 ± 0.1 6.7 ± 0.2* 8.6 ± 0.4 8.8 ± 0.1* 6.0 ± 0.4
 TR3 11.4 ± 0.1 10.5 ± 0.1 9.5 ± 0.1 8.5 ± 0.2 6.7 ± 0.3* 8.6 ± 0.5 8.8 ± 0.1* 6.1 ± 0.2*
Period E (MTZ)
 CR 10.9 ± 0.2 9.6 ± 0.2 10.4 ± 0.2 7.6 ± 0.2 7.1 ± 0.3 9.1 ± 0.1 9.7 ± 0.1 5.8 ± 0.1
 TR1 11.2 ± 0.2 9.5 ± 0.2 9.4 ± 0.5* 7.7 ± 0.3 9.5 ± 0.2* 5.7 ± 0.1* 5.9 ± 0.2* 5.1 ± 0.2*
 TR4 11.1 ± 0.1 9.7 ± 0.2 9.3 ± 0.3* 8.1 ± 0.3 9.4 ± 0.3* 6.7 ± 0.1* 6.7 ± 0.2* 5.0 ± 0.2*
Period F (REC)
 CR 11.3 ± 0.2 10.2 ± 0.1 10.1 ± 0.4 7.2 ± 0.5 7.1 ± 0.2 8.3 ± 0.2 9.7 ± 0.2 6.4 ± 0.1
 TR1 11.7 ± 0.3 10.3 ± 0.1 10.1 ± 0.3 7.4 ± 0.4 7.6 ± 0.3* 8.2 ± 0.3 8.5 ± 0.03* 6.3 ± 0.1
 TR4 11.3 ± 0.1 10.1 ± 0.2 10.3 ± 0.4 7.4 ± 0.1 7.1 ± 0.1 7.2 ± 0.2* 8.6 ± 0.2* 5.5 ± 0.02*
  1. Data are mean log10 GC mL−1 fermentation effluent ± SD of the last 3 days of the treatment periods; samples were analyzed in duplicates
  2. Means with an asterisk differ significantly from the control reactor within the same bacterial group (p < 0.05)
  3. CR control reactor, TR test reactor, CRO ceftriaxone, MTZ metronidazole, REC recovery