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The Qiagen Epitect Bisulfite kit converts DNA in one step which is followed by a clean up step. Following the bisulfite conversion, I ran a PCR using the. U can try EZ Direct Methylation kit from Zymo research. For formalin fixed tissues, u need to increase the digestion time as well as volume of Proteinase K. Both. during purification. QIAGEN’s EpiTect® Fast Bisulfite kits prevent DNA fragmentation during bisulfite conversion thanks to the unique DNA. Protect Buffer, which.

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After HSO 3 — induced hydrolytic deamination of the intermediate [32][33]bisulfite is eliminated at alkaline pH [32]. Furthermore, the introduction of an incubation step bksulfite high temperature after proteinase K treatment might help to remove remaining crosslinks based on the antigen retrieval principal and therefore lead to higher quality DNA [37].

Consequently, the epigenetic information of the DNA is transformed into sequence information, which can be studied via PCR and other hybridization based methods.

Bisulfite conversion of each sample type was done in three independent reactions.

EpiTect Bisulfite Kit (48)

Each kit was tested in nine replicates. The CFP sites do not comprise any cytosines and therefore are not altered during the bisulfite conversion.

Dimo Dietrich is co-inventor and owns patents on methylation biomarkers and related technologies.

PCR measurements of each bisulfite reaction were carried in bisufite. Furthermore, aberrant DNA methylation is a hallmark of malignant tumors and plays a key role during carcinogenesis [2].


UV spectra of bisulfite-converted and purified DNA left panel.

EpiTect Bisulfite Kit (48), from Qiagen – Labsave

Water containing no DNA was processed through the bisulfite protocols of the different kits. The funder had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.

The optimal reaction conditions result from a balanced control of all desired conversion of cytosines and undesired reactions DNA degradation and inappropriate conversion. The suitability for different starting materials, i.

However, Genereux et al. The assay showed a PCR efficiency of 2. All clinical specimens and samples were obtained from the University Hospital of Bonn, Germany. The availability of kits and tools to measure DNA methylation in these sample types is mandatory to open this research area to a wide group of researchers. DNA methylation of cytosines within the CpG dinucleotide context is an epigenetic mechanism, which plays an important role in biological processes, such as cell differentiation and development [1].

The DNA was extracted by phenol-chloroform extraction as previously described [25]. Another critical parameter is the stability of bisulfite solutions. The DNA was extracted from FFPE placental tissue and fresh placental tissue by means of proteinase K lysis and subsequent phenol-chloroform extraction. J Vet Diagn Invest. Am J Transl Res. Accordingly, this kit is of particular utility for critical sample materials where a deparaffination and re-hydration by means of xylene and ethanol series might lead to a loss of tissue.

Each kit was tested in 9 replicates.

EpiTect 96 Bisulfite Kit (2) from QIAGEN | SelectScience

Kits based on long oit times bisupfite to a higher fragmentation of DNA. The potential inhibitory effect caused by carry-over of impurities from the bisulfite reaction was tested in a spiking experiment. Altogether clones comprising conversion sites were analyzed.


Several studies describe the sensitive analysis of DNA methylation biomarkers in plasma or serum as promising tests for early detection of various tumors [10][11]. The DNA from FFPE tissue already showed a strong fragmentation before bisulfite conversion, therefore only minor differences between the kits can be observed after conversion.

Methylated cytosine exhibits a similar base pairing behaviour as cytosine and therefore methlyated and unmethylated cytosines are difficult to distinguish from each other by conventional hybridization-based molecular biological methods, i.

In comparison, the EpiTect Bisulfite Kit showed the lowest conversion rate of The bisulfite conversion is a chemical reaction under harsh chemical conditions low pH, high temperature and elongated incubation times causing significant DNA degradation [29][30][31]. Accordingly, the availability of labor and the necessity to obtain quick results might influence the choice of a suitable kit.

Two-sided p-values are reported.

The aim of this study is to evaluate the performance of the most widely used kits: Curr Protoc Mol Biol Chapter 7: Direct input of FFPE tissue sections. The inappropriate conversion of methyl-cytosine to thymine was determined for nine different commercially available bisulfite conversion kits.