A team of scientists including PhD student Friedrich Schuler from the Laboratory of MEMS Applications at the Department of Microsystems Engineering (IMTEK) of the University of Freiburg has developed a method for dividing a DNA sample into thousands of tiny droplets. What sets it apart from ... more
Micro-Copier for Genome AnalysisNew method holds promise to advance personalised medicine
The DNA sequences are replicated in picowell arrays (bottom) and transferred on microscopic slides (top).
The scientists Jochen Hoffmann, Dr. Guenther Roth, and Prof. Dr. Roland Zengerle from the Department of Microsystems Engineering (IMTEK) at the University of Freiburg can copy simultaneously 100.000 different DNA sequences in a so called picowell array that has the size of a one cent coin.
The picowell array is a chip with 100.000 wells on which the DNA sequences are dispersed in order to achieve a statistical distribution of one sequence per well. All wells are then covered with one microscopic slide and the DNA sequences are replicated by polymerase chain reaction (PCR) technique. The resulting DNA copies bind to the miscroscopic slide at exactly the position of the original DNA sequence. The DNA copies can be decoded by next-generation sequencing systems in the wells of the array. The microscopic slides can be used, similar to DNA microarrays, for the rapid and cost-effective analysis of entire genomes – without the need for other equipment or additional transfer steps.
Such genome analyses allow insights into the regulatory systems of an organism. For example the genome analysis of a tumour cell can reveal which of its signal paths are defective. This knowledge in the context of “personalised medicine” can help to develop a tailored therapy for a specific patient group.
The project was supported by the “Program for Excellency in Science and Technology” as part of a grant from the Hans L- Merkle-Stiftung. The Robert Bosch GmbH and the Association for the Promotion of Science and Humanities in Germany also supported the project.
The topic is now further developed in the Lab-on-a-Chip research groups “Arrays” of Jochen Hoffmann and “Assays” of Dr. Guenther Roth. Lab-on-a-chip is a main research topic in cooperation with the Laboratory for MEMS Applications and the Institut fuer Mikro- und Informationstechnik der Hahn-Schickard-Gesellschaft (HSG-IMIT). The research groups are based on the campus of the Faculty for Engineering.
J. Hoffmann, H.M. Trotter, F. von Stetten, R.Zengerle and G.Roth: Solid-phase PCR in a picowell array for immobilizing and arraying 100,000 PCR products to a microscope slide, Lab Chip, 2012
- next generation sequencing
After a ten-year effort, Prof. Dr. Michael Reth from the Institute of Biology III of the University of Freiburg and the Max Planck Institute of Immunobiology and Epigenetics has developed a method to investigate the cell surface's organization on a nanometer scale. This allows him to monito ... more
From the lab to the computer: Scientists from the University of Freiburg have developed a computer program to predict the functions of bacterial gene regulators. This online software which is called CopraRNA could save researchers a lot of wet lab work as it precisely predicts which bacteri ... more
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