Wageningen University has a strong background in plant genome sequencing including contributions to the Arabidopsis, potato and tomato genome research as partner of various international consortia. The sequencing facility of Wageningen University operates several 2nd and 3rd generation sequencing platforms including a Pacbio RS-II. The rapid developments of this third generation sequencing resulting in continuously increased read length requires a reliable DNA fragmentation into large molecules. The benefit of these large DNA molecules is their ability to span repetitive sequences which appeared to be crucial for de-novo reconstruction of large and complex genomes. To stay ahead of new developments intended for sequencing library preparations we tested the Megaruptor® from Diagenode for optimizing our library preparation procedure targeting very large DNA molecules used for Pacbio sequencing.For this purpose we used the Megaruptor® using large hydropores, evaluating target fragmentation size, fragment range, reproducibility and the ease in usage.