11.4.1. Fragmentation of DNA

  1. Fragment 5µg of high molecular weight DNA using the Covaris S2 AFA System in a total volume of 100µl.
    Fragmentation-run parameters:
    Duty cycle 10%,
    Intensity: 5,
    Cycles/burst: 200,
    Time: 3min,
    Number of cycles: 3,
    This results in a total fragmentation-time of 180s.
  2. Confirm fragmentation with a 2100 Bioanalyzer (Agilent Technologies) using a DNA1000 chip, aiming for fragment sizes of 140bp on average for both queen and worker DNAs.