Research Article
The Influence of DNA Extraction Procedure and Primer Set on the Bacterial Community Analysis by Pyrosequencing of Barcoded 16S rRNA Gene Amplicons
Table 3
Influence of extraction procedure and primer sets on the relative distribution of sequence reads for main bacterial orders
1 [%] (
).
| | Extraction | Primer set | Lactobacilliales | Clostridiales | Enterobacteriales | Actinomycetales | Bacillales | Fusobacteriales |
| I
| 8f-534r | 75.9 (±8.1) | 15.2 (±7.4) | 5.7 (±5.3) | 1.5 (±0.4) | 0.39 (±0.20) | 0.19 (±0.12) | | 968f-1401r | 41.9 (±7.8) | 37.2 (±9.2) | 6.8 (±6.1) | 10.4 (±3.2) | 1.7 (±0.8) | 0.10 (±0.05) | II
| 8f-534r | 90.8 (±5.4) | 7.4 (±5.5) | 0.19 (±0.08) | 0.36 (±0.07) | 0.15 (±0.06) | 0.21 (±0.06) | | 968f-1401r | 82.1 (±7.8) | 16.1 (±7.8) | 0.21 (±0.06) | 1.1 (±0.18) | 0.11 (±0.03) | 0.01 (±0.01) |
| | Extraction | Primer set | Burkholderiales | Pseudomonadales | Campylobacterales | Neisseriales | Erysipelotrichales | Caulobacterales |
| | I | 8f-534r | 0.02 (±0.02) | n.d. | 0.18 (±0.15) | n.d. | n.d. | 0.01 (±0.01) | | 968f-1401r | 0.06 (±0.05) | 0.01 (±0.01) | 0.05 (±0.05) | 0.88 (±0.44) | n.d. | n.d. | | II | 8f-534r | 0.23 (±0.06) | 0.15 (±0.05) | 0.19 (±0.06) | 0.21 (±0.06) | n.d. | 0.002 (±0.001) | | 968f-1401r | 0.05 (±0.02) | 0.20 (±0.06) | n.d. | 0.15 (±0.05) | n.d. | n.d. |
|
|
n.d.: not detected.
1Different superscripts within a column are significantly different (; ANOVA).
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