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Table 2 Five DNA extraction methods used: pure intact C. pneumoniae EB and aorta tissue samples spiked with C. pneumoniae EB For each sample type different EB input dilutions were used, these are displayed in the first column. Shown are also a rough estimate of the EB concentrations as determined by real-time PCR. For each method and sample the mean output C. pneumoniae genomic DNA concentration and standard deviation (SD) is displayed for two replicates as determined with the quantitative pmp4 LightCycler PCR. In addition relative recovery percent is calculated relative to the best method, which in this case was the MagNA Pure method (% Rel. rec.). Additionally standard deviations (SD) are also shown for the relative recovery percentages.

From: Evaluation of five DNA extraction methods for purification of DNA from atherosclerotic tissue and estimation of prevalence of Chlamydia pneumoniae in tissue from a Danish population undergoing vascular repair

    phenol/chloroform phenol/chloroform + CTAB DNeasy Tissue kit Easy-DNA kit Magna Pure
  EB Dilution Appr. EB conc. EB/μl Mean output copies/μl SD of Mean % Rel. rec. SD of % Relative rec. Mean output copies/μl SD of Mean % Rel. rec. SD of % Relative rec. Mean output copies/μl SD of Mean % Rel. rec. SD of % Relative rec. Mean output copies/μl SD of Mean % Rel. rec. SD of % Relative V Mean output copies/μl SD of Mean % Rel. rec. SD of % Relative rec.
C. pneumoniae EB samples negative 0 0 0 - - 0 0 - - 0 0 - - 0 0 - - 0 0 - -
  1.2 × 10-8 0.2 0 0 - - 0 0 - - 0 0 - - 0 0 - - 0 0 - -
  1.2 × 10-6 20 3.76 4.60 42.8 52.4 1.38 0.410 15.8 4.7 8.36 3.59 95.3 40.9 0.464 0.160 5.3 1.8 8.78 0.005 100 0.06
  1.2 × 10-5 200 28.6 29.9 27.0 28.2 38.0 44.7 35.8 42.2 96.2 19.3 90.8 18.2 1.81 1.24 1.7 1.2 106 38.3 100 36.2
  1.2 × 10-4 2000 248 208 20.2 17.0 140 60.2 11.4 5.0 982 250 79.8 20.3 18.5 21.7 1.5 1.8 1.23 × 103 331 100 26.9
  av rec % - - - 30.0 29.5 - - 21.0 22.3 - - 88.6 23.1 - - 2.8 2.3 - - 100 20.2
EB spiked aorta tissue samples negative 0 0 0 - - 0 0 - - 0 0 - - 0 0 - - 0 0 - -
  1.2 × 10-8 0.2 0 0 0 0 0.219 0.310 18.0 25.4 0 0 0 0 0 0 0 0 1.22 1.72 100 141.3
  1.2 × 10-6 20 10.1 3.92 53.2 20.7 14.3 7.05 75.6 37.3 13.9 4.82 73.7 25.5 2.33 0.184 12.3 1.0 18.9 2.86 100 15.1
  1.2 × 10-5 200 50.3 24.4 44.5 21.6 125 7.14 110.5 6.3 66.3 30.2 58.7 26.8 29.5 1.11 26.1 1.0 113 0.530 100 0.5
  1.2 × 10-4 2000 632 177 49.0 13.7 648 585 50.3 45.3 869 208 67.3 16.2 191 128 14.8 9.9 1.29 × 103 247 100 19.2
  av rec % - - - 36.7 26.0 - - 63.6 43.7 - - 49.9 34.8 - - 13.3 10.6 - - 100 54.2
  overall av rec % - - - 33.8 26.7 - - 45.3 41.2    66.5 35.4    8.8 9.6    100 41.7