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

Open Data