Table 4.
Sample | Sequencing method | Estimation method | F | B | ratio F/B |
Brain abscess pus | 16S rRNA P | Barcode hits | 39 | 41 | 0.95 |
16S rRNA P | RDP-II classifier | 521 | 509 | 1.02 | |
16S rRNA CS | Number of clone sequences | 49 | 50 | 0.98 | |
Cystic fibrosis sputum | 16S rRNA P | Barcode hits | 34 | 2 | 17 |
16S rRNA CS | Number of clone sequences | 16 | 1 | 16 | |
Caecal content | MP | Barcode hits | 79 | 33 | 2.39 |
% of total 16S rRNA sequences | 60.70 | 28.41 | 2.14 |
P, CS and MP mean Pyrosequencing, Clonal Sanger Sequencing and Metagenome Pyrosequencing, respectively. F and B mean Firmicutes phylum and Bacteroidetes phylum, respectively. The numbers of clone sequences assigned to the Firmicutes or Bacteroidetes phylum was performed using BLAST algorithm and Genebank database. For the metagenome pyrosequencing, the 16S rRNA fraction was found with BLAST algorithm and RDP-II database. RDP-II classifier was used as a control with a bootstrap confidence > 80%