Table 1 |
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Comparison of recommended DNA extraction protocols based on technical booklets included with respective extraction kits. |
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Extraction kit/Steps |
M1 |
Q1 |
FSp1 |
FSo1 |
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Fecal wt (mg) |
250 - 1000 |
180 - 220 |
200 |
500 |
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Beads |
Unknown beads |
None |
Ceramic + garnet |
Ceramic + silica |
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Cell lysis and homogenization |
Flat bed vortexer (10 min) |
Centrifuge (14,000 rpm, 1 min) |
Fast Prep® Instrument (speed 6.0, 40 s) |
Fast Prep® Instrument (speed 5.5; 30 s) |
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Adsorption of inhibitors |
IRS2 solution |
InhibitEx tablet |
None listed |
None listed |
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Approximate time to completion3 |
45 to 60 min |
60 to 80 min |
45 to 60 min |
60 to 80 min |
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Average cost of kit4 |
$176.00 |
$181.00 |
$344.20 |
$240.45 |
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1M, Mobio Ultra Clean® Fecal DNA Isolation Kit; Q, QIAamp® DNA Stool Mini Kit; FSp, FastDNA® SPIN Kit; FSo, FastDNA® SPIN Kit for Soil 2Abbreviations are not defined by manufacturers due to being proprietary in nature 3Approximate time to complete DNA extraction for 12 samples using kits M, FSp, and FSo, but only 6 to 8 samples for kit Q (due to using table-top vortexer for shaking as listed in the protocol) 4Prices as of May 2010 (based on 50 preparations for kits M, Q, and FSo; 100 preparations for kit FSp) |
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Ariefdjohan et al. Nutrition Journal 2010 9:23 doi:10.1186/1475-2891-9-23 |
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