Table 1

Five DNA extraction methods used on pure C. pneumoniae DNA and aorta tissue samples spiked with C. pneumoniae DNA For each sample type different DNA input concentrations were used, these are displayed in the first column. DNA input concentration was known as pure genomic C. pneumoniae DNA was used for preparation of samples. 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 percentage of recovered DNA is calculated (% Rec.). Standard deviations (SD) are also shown for the recovery percentages.


phenol/chloroform
 phenol/chloroform +CTAB
 DNeasy Tissue kit
 Easy-DNA kit
 Magna Pure



Input copies /μl
 Mean output copies/μl
 SD of Mean
 % Rec.
 SD of % Rec.
 Mean output copies/μl
 SD of Mean
 % Rec.
 SD of % Rec.
 Mean output copies/μl
 SD of Mean
 % Rec.
 SD of % Rec.
 Mean output copies/μl
 SD of Mean
 % Rec.
 SD of % Rec.
 Mean output copies/μl
 SD of Mean
 % Rec.
 SD of % Rec.
Pure C. pneumoniae DNA samples
 0
 0
 0
 -
 -
 0
 0
 -
 -
 0
 0
 -
 -
 0
 0
 -
 -
 0
 0
 -
 -

10
 1.79
 0.213
 17.9
 2.1
 0
 0
 0.0
 0
 8.08
 1.21
 80.8
 12.1
 0.661
 0.520
 6.6
 5.2
 4.60
 0.377
 46.0
 3.8

103
 296
 15.4
 29.6
 1.5
 11.8
 3.20
 1.2
 0.3
 658
 77.7
 65.8
 7.8
 48.9
 14.5
 4.9
 1.4
 508
 49.0
 50.8
 4.9

105
 2.09 × 104
 2.55 × 103
 20.9
 2.5
 728
 107
 0.7
 0.1
 7.54 × 104
 1.83 × 104
 75.4
 18.4
 3.10 × 103
 1.83 × 103
 3.1
 1.8
 5.58 × 104
 7.54 × 103
 55.8
 7.5

av rec %
 -
 -
 22.8
 5.7
 -
 -
 0.6
 0.6
 -
 -
 74.0
 12.4
 -
 -
 4.9
 3.0
 -
 -
 50.9
 6.2
Aorta tissue samples spiked with C. pneumoniae DNA
 0
 0
 0
 -
 -
 0
 0
 -
 -
 0
 0
 -
 -
 0
 0
 -
 -
 0
 0
 -.
 -

10
 0
 0
 0.0
 0
 1.31
 0.240
 13.1
 2.4
 4.56
 4.19
 45.6
 42.0
 6.34
 1.50
 63.4
 15.0
 1.83
 0.622
 18.3
 6.2

103
 70.8
 32.7
 7.1
 3.3
 13.0
 6.46
 1.3
 0.6
 285
 23.9
 28.5
 2.4
 255
 13.7
 25.5
 1.4
 82.0
 6.08
 8.2
 0.6

105
 5.00 × 103
 2.55 × 103
 5.0
 2.4
 1.40 × 103
 611
 1.4
 1.0
 2.37 × 104
 502
 23.7
 0.5
 3.30 × 104
 7.53 × 103
 33.0
 7.5
 1.61 × 104
 1.06 × 104
 16.1
 10.6

av rec %
 -
 -
 4.0
 3.7
 -
 -
 5.3
 6.2
 -
 -
 32.6
 21.4
 -
 -
 40.6
 19.4
 -
 -
 14.2
 7.3

over-all avrec %
 -
 -
 13.4
 10.8
 -
 -
 3.0
 4.8
 -
 -
 53.3
 27.3
 -
 -
 22.8
 22.9
 -
 -
 32.5
 20.2

Mygind et al. BMC Microbiology 2003 3:19   doi:10.1186/1471-2180-3-19