A novel approach for extracting DNA from formalin-fixed paraffin-embedded tissue using microwave

Abstract Background Formalin-fixed paraffin-embedded (FFPE) tissue is the gold standard procedure for tissue preservation. However, the extraction of DNA is a cumbersome procedure as the extracted DNA is fragmented because of the cross-linking effect of formalin. Hence, the aim of the present study is to extract DNA from FFPE tissues using different techniques with a specific objective of comparing the extracted DNA, both quantitatively and qualitatively. Method Ten samples of FFPE tissues were retrieved from the archives of the Department of Oral Pathology. Total genomic DNAwas extracted by different methods which included QIAamp DNA FFPE Tissue Kit, Norgen DNA FFPE Tissue Kit, phenol–chloroform method, mineral oil–based extraction, M/10 NaOH solution method, and microwave method. A 280–base pair sequence was selected for evaluation of downstream amplification. Results The statistical analysis was performed using unpaired student's t-testto compare the DNA yields and quality obtained by microwave methods with other methods using SPSS software. Total genomic DNAretrieved by the microwave method was superior to other methods both qualitatively and quantitatively. Conclusion DNA extraction from FFPE tissues is an onerous task as irreversible bonds form between the nucleic acid during fixation which are difficult to break during DNA retrieval. Hence, the microwave method provides good total genomic DNAwhich gives better downstream results when compared with other methods.