Table 2 Colony forming unit-normalized 16S r DNA copy number for various extraction protocols associated with three biological replicates of Shigella sonnei
From: The near-quantitative sampling of genomic DNA from various food-borne Eubacteria
Shigellacopies 16SrRNA “gene” per CFU | ||||||
|---|---|---|---|---|---|---|
Extraction methods | Culture 1 | Culture 2 | Culture 3 | Mean | Stdev | |
Quick Extract (AmPure) | 1.29 | 0.808 | 1.60 | 1.23 | 0.399 | a |
Fast ID | 1.26 | 1.06 | 1.82 | 1.38 | 0.394 | a |
BeadBug | 2.03 | 2.12 | 2.07 | 2.07 | 0.0451 | a |
PrepMan Ultra | 2.62 | 2.30 | 3.99 | 2.97 | 0.898 | ab |
DNeasy | 2.42 | 2.96 | 3.63 | 3.00 | 0.606 | ab |
Boiling Water | 4.70 | 2.21 | 3.49 | 3.47 | 1.25 | ab |
Genscript | 2.22 | 2.88 | 9.88 | 4.99 | 4.24 | abc |
High Pure | 6.96 | 8.74 | 9.28 | 8.33 | 1.21 | bc |
Trizol | 9.03 | 8.98 | 10.3 | 9.44 | 0.748 | cd |
OmniLyse | 18.7 | 14.4 | 12.1 | 15.1 | 3.35 | de |
Agencourt | 18.4 | 23.7 | 20.4 | 20.8 | 2.68 | e |
CFU mL−1 | ||||||
3.87 × 108 | 3.67 × 108 | 4.18 × 108 | ||||
±16.7% | ±5.35% | ±0.940% | ||||