Table 3

Percentage of F. nucleatum ORFs classified by the taxa of potential origin.

Sequence similarity method (BLAST)

Phylogenetic trees method

Gene order conservation


Number of genes analyzed

2067

1236

738


Root of Firmicutes1

33.28 %

8.41 %

35.1 %

Inside Firmicutes2

12.92 %

25.8 %

15.45 %

CFB group

2.56 %

2.27 %

4.06 %

α, β, γ Proteobacteria

7.34 %

10.3 %

21.0 %

δ, ε Proteobacteria

5.07 %

3.4 %

5.7 %

Spirochaetes

4.35 %

4.32

6.37 %

Other eubacteria

3.58 %

4.53

4.2 %

Archaea

2.46 %

1.13 %

0.95 %

No hit, hit to eukaryotes, uncertain/unresolved

28.4 %

38.7 %

7.45 %


1 Genes consistent with the 16S-23S and ribosomal proteins phylogeny.

2 It indicates possible HGT to/from Firmicutes.

Mira et al. BMC Evolutionary Biology 2004 4:50   doi:10.1186/1471-2148-4-50

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