Table 1

Number of common and subject-specific taxa

Total # of taxa

# of common taxa (%)

# of subject-specific taxa (%)


Phylum

8

5 (62.5)

0 (0)

Class

15

4 (26.7)

1 (6.7)

Order

32

6 (18.8)

1 (3.1)

Family

57

9 (15.8)

2 (3.5)

Genus

81

8 (9.9)

1 (1.2)

OTU003

583

11 (1.9)

17 (2.9)

Distinct sequences (100%-ID phylotypes)

3011

9 (0.3)

69 (2.3)


Taxa found in the three time-point samples of all subjects are designated as common. Subject-specific taxa correspond to those found in the three time-point samples from some subjects and absent in the three time-point samples from the others. Taxa (phylum to genus) were identified using MG-RAST with a minimum alignment length of 105, the RDP dataset option and a maximum e-value of 10-30 [12]. OTUs003 were defined using CD-HIT [33], and include the hypervariable regions.

Lazarevic et al. BMC Genomics 2010 11:523   doi:10.1186/1471-2164-11-523

Open Data