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Open Access Research article

Methyl-binding domain protein-based DNA isolation from human blood serum combines DNA analyses and serum-autoantibody testing

Matthias Wielscher1, Walter Pulverer1, Johannes Peham1, Manuela Hofner1, Christine F Rappaport2, Christian Singer2, Christof Jungbauer3, Christa Nöhammer1 and Andreas Weinhäusel1*

Author affiliations

1 Molecular Medicine, Austrian Institute of Technology, Muthgasse 11, 1190 Vienna, Austria

2 Department of Obstetrics and Gynecology, Medical University of Vienna, Währinger Grütel 18 - 20, 1090 Vienna, Austria

3 Blood Donation Center for Vienna, Lower Austria and Burgenland, Austrian Red Cross, Wiedner Hauptstraße 32, 1040 Vienna, Austria

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Citation and License

BMC Clinical Pathology 2011, 11:11  doi:10.1186/1472-6890-11-11

Published: 6 September 2011

Abstract

Background

Circulating cell free DNA in serum as well as serum-autoantibodies and the serum proteome have great potential to contribute to early cancer diagnostics via non invasive blood tests. However, most DNA preparation protocols destroy the protein fraction and therefore do not allow subsequent protein analyses. In this study a novel approach based on methyl binding domain protein (MBD) is described to overcome the technical difficulties of combining DNA and protein analysis out of one single serum sample.

Methods

Serum or plasma samples from 98 control individuals and 54 breast cancer patients were evaluated upon silica membrane- or MBD affinity-based DNA isolation via qPCR targeting potential DNA methylation markers as well as by protein-microarrays for tumor-autoantibody testing.

Results

In control individuals, an average DNA level of 22.8 ± 25.7 ng/ml was detected applying the silica membrane based protocol and 8.5 ± 7.5 ng/ml using the MBD-approach, both values strongly dependent on the serum sample preparation methods used. In contrast to malignant and benign tumor serum samples, cell free DNA concentrations were significantly elevated in sera of metastasizing breast cancer patients. Technical evaluation revealed that serum upon MBD-based DNA isolation is suitable for protein-array analyses when data are consistent to untreated serum samples.

Conclusion

MBD affinity purification allows DNA isolations under native conditions retaining the protein function, thus for example enabling combined analyses of DNA methylation and autoantigene-profiles from the same serum sample and thereby improving minimal invasive diagnostics.