DNA extraction
procedure based on magnetite nanoparticle: A Plackett-Burman design optimization
Tjoa Stanley Evander Emeltan, Mudasir Mudasir, Suharyadi Edi and Daryono Budi Setiadi
Res. J. Biotech.; Vol. 20(3); 1-7;
doi: https://doi.org/10.25303/203rjbt0107; (2025)
Abstract
The MNPs-based DNA extraction method is a commonly used method, but research for
its optimization has rarely been done using OFAT. Plackett-Burman is an experimental
design used to analyze many factors. In this study, we used Plackett-Burman to screen
several factors in the MNPs-based DNA extraction step such as MNPs type, MNPs amount,
MNPs solvent, binding buffer, washing buffer, washing method, drying and elution
buffer on the concentration and purity of the extracted DNA. Based on Plackett-Burman
analysis, none of the factors had a significant effect on the concentration and
purity of the extracted DNA.
The analysis also informed the interaction effect between the MNPs amount (in the
range 2 – 5 mg) and type (the use of TEOS up to 0.25 w/v) on DNA concentration even
though it was not significant. Model 9, one of the models given by the Plackett-Burman
matrix was used to extract DNA from environmental bacteria and several types of
specimens spiked with Mycobacterium tuberculosis. The extracted DNA has good integrity.
It could also be amplified by conventional PCR and probe-based qPCR methods.
