Table 3 Colony forming unit-normalized 16S r DNA copy number for various extraction protocols associated with three biological replicates of Escherichia coli O79
From: The near-quantitative sampling of genomic DNA from various food-borne Eubacteria
E. colicopies 16SrRNA “gene” per CFU | ||||||
|---|---|---|---|---|---|---|
Extraction methods | Culture 1 | Culture 2 | Culture 3 | Mean | Stdev | |
DNEasy | 2.98 | 2.55 | 4.62 | 3.38 | 1.09 | a |
QuikExtrax (AmPure) | 2.07 | 2.34 | 6.46 | 3.62 | 2.46 | a |
BeadBug | 7.43 | 6.83 | 7.66 | 7.31 | 0.429 | ab |
Trizol | 7.07 | 13.9 | 3.77 | 8.25 | 5.17 | abc |
Boiling Water | 11.2 | 10.0 | 7.35 | 9.52 | 1.97 | abc |
PrepMan Ultra | 10.7 | 14.2 | 10.5 | 11.8 | 2.08 | abc |
Genscript | 12.7 | 12.0 | 18.9 | 14.5 | 3.80 | bc |
Agencourt | 11.5 | 14.5 | 21.9 | 16.0 | 5.35 | bc |
Fast ID | 12.5 | 18.6 | 18.9 | 16.7 | 3.61 | c |
High Pure | 25.6 | 25.0 | 27.5 | 26.0 | 1.31 | d |
OmniLyse | 28.6 | 23.0 | 29.1 | 26.9 | 3.39 | d |
CFU mL−1 | ||||||
5.61 × 108 | 6.04 × 108 | 6.13 × 108 | ||||
±8.60% | ±27.8% | ±12.4% | ||||