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Table 2 The distribution of sequence reads, OTU's in absolute numbers and the ratio between Firmicutes and Bacteroides in pooled caecal samples

From: The influence of the cage system and colonisation of SalmonellaEnteritidis on the microbial gut flora of laying hens studied by T-RFLP and 454 pyrosequencing

 

Conventional cage

Furnished cage

Aviary

 

Before inoculation

4 weeks PI

Before inoculation

4 weeks PI

Before inoculation

4 weeks PI

Number of reads

51,863

21,714

42,885

42,520

51,715

40,410

Number of OTU/total number of OTU

185/197

178/197

196/197

193/197

195/197

193/197

 

93.9%

90.4%

99.5%

98.0%

99.0%

98.0%

Firmicutes/Bacteroides ratioa

0.81

0.61

0.87

0.74

0.69

0.68

  1. a The ratio was calculated by dividing all OTU that could be affiliated to Firmicutes (Clostridia and Bacilli) by the number of OTU's from Bacteroides.