Design of 16S rRNA gene primers for 454 pyrosequencing of the human foregut microbiome

Table 3 Accuracy of taxonomic classification of 219 foregut species using 350-bp sequences

Amplicon	% accuracy compared to 900-bp amplicon/full length
	Phylum	Class	Order	Family	Genus
Forward reads
A	97.7/97.7	96.3/95.9	95.9/95.4	93.2/94.5	87.7/86.8
B	99.1/99.1	98.2/96.8	97.7/96.3	97.3/95.9	91.8/89.0
C	99.5/99.5	98.2/96.8	97.7/96.8	97.3/95.9	90.4/88.1
D	98.6/99.1	98.6/98.2	97.3/97.3	95.9/96.3	88.1/86.8
E	98.2/98.6	97.7/98.2	95.4/95.9	92.2/93.6	85.4/84.9
F	97.7/98.2	96.3/97.3	95.0/95.4	91.8/93.6	83.6/84.5
Reverse reads
A’	98.6/98.6	97.3/97.7	97.3/97.7	95.0/96.3	90.0/90.9
B’	99.5/99.5	98.2/96.8	97.7/96.8	97.7/96.3	93.6/91.8
C’	99.5/99.5	98.2/96.8	97.7/96.8	97.3/95.9	91.3/90.0
D’	99.5/100	98.6/99.5	96.8/98.2	94.5/96.3	87.2/89.5
E’	98.2/98.6	96.8/98.2	94.5/96.3	91.3/94.1	83.6/87.2
F’	98.2/98.6	96.8/98.2	95.0/96.4	92.2/95.0	82.6/85.8