February 28, 2019 – MicroGEM today announced that BioTechniques published data demonstrating the performance of MicroGEM’s PDQeX Nucleic Acid Extractor compared to a conventional column purification method. While the two methods produced comparable bacterial DNA extractions, the PDQeX performed much more rapidly in under 30 minutes compared to over 2 hours for the conventional approach.

In addition, the PDQeX extraction was performed in a closed extractor cartridge with no handling of sample post preparation. By contrast, the conventional bacterial extraction method took 2 hours, including two incubations and several pipetting, transfer and centrifugation steps, increasing the possibility of contamination (Figure 1).

Figure 1: Schematic showing relative processing times and breakdown of the PDQeX and conventional protocols.

A side-by-side whole genome sequencing comparison of DNA prepared using the PDQeX and a standard column method was performed. A total of 18 bacterial genomic DNA extractions using both methods were performed simultaneously: six strains extracted in triplicate. All sequencing and sequence metrics comparisons were performed blind to DNA extraction method.

On all measures of performance tested in this study, DNA produced from the PDQeX system was shown to be comparable to the conventional extraction kit although processed in less than 30 minutes compared to the conventional 2 hours. DNA extracted using the PDQeX system can be used directly for whole-genome sequencing without further purification. The simplicity and minimal sample manipulation requirement of the PDQeX system make it an attractive option for obtaining DNA samples for high-throughput DNA sequencing studies.

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Stanton, J. L., Muralidhar, A., Rand, C. J., & Saul, D. J. (2019). Rapid extraction of DNA suitable for NGS workflows from bacterial cultures using the PDQeX. BioTechniques. doi:10.2144/btn-2019-0006.