Breast, ovarian, endometrial and lung tumor samples are routinely homogenized and processed for DNA in cancer research. In addition to local diagnostic requirements, DNA obtained from tumour samples is submitted to the 100,000 Genome Project that aims to use Whole Genome Sequencing (WGS) technique on patients, plus their families, with a rare disease or cancer. This project imposes high standards of DNA quantity and fragment length quality.
In this study, the Minilys tissue homogenizer was evaluated for tumor tissue sample homogenization and results were compared to those obtained following a manual sample homogenization method. The DNA yield and quality as well as hands-on time required were compared between the two methods.
• The processing time was significantly reduced when using Minilys for homogenization, as well as the post treatment time with Proteinase K (reduced to one hour vs overnight for the manual method).
• The yield of DNA recovery with Minilys was higher in 81% of the samples compared to the manual method. Nine out of eleven samples homogenized by the manual method didn’t exceed the concentration of 15ng/μl while the lowest concentration found in samples homogenized by the Minilys was 3 times higher (49ng/μl). The average DNA yield recovery with the Minilys was 185.7ng/μl compared to 26.8ng/μl for the manual method. Therefore, only 1 sample needed to be treated.
• All DNA samples obtained with the Minilys showed good quality, including excellent fragment length (Figure 1) meeting the 100.000 genome requirements of >60% of fragments with a minimal length of 23kbp.
Figure 1. Fragment length characterization using the TapeStation instrument (Agilent)