Computer simulations show how two knots on a DNA strand can interchange their positions
Physicists of Johannes Gutenberg University Mainz (JGU) and the Graduate School of Excellence “Materials Science in Mainz” (MAINZ) have been able with the aid of computer simulations to confirm and explain a mechanism by which two knots on a DNA strand can interchange their positions.
Schematic representation of the swapping event: one of the knots grows in size, while the other diffuses along the contour of the former.
ill./©: Peter Virnau, JGU
For this, one of the knots grows in size while the other diffuses along the contour of the former. Since there is only a small free energy barrier to swap, a significant number of crossing events have been observed in molecular dynamics simulations, i.e., there is a high probability of such interchange of positions.
“We assume that this swapping of positions on a DNA strand may also happen in living organisms,” explained Dr. Peter Virnau of the JGU Institute of Physics, who performed the computer simulation together with his colleagues Benjamin Trefz and Jonathan Siebert.
The scientists expect that the mechanism may play an important role in future technologies such as nanopore sequencing, where long DNA strands are sequenced by being pulled though pores. Long DNA strands of more than 100,000 base pairs have an increasing chance of knots, which is relevant for sequencing.
Benjamin Trefz, Jonathan Siebert, Peter Virnau
How molecular knots can pass through each other
Proceedings of the National Academy of Sciences, 19 May 2014
Dr. Peter Virnau
Condensed Matter Theory Group (KOMET)
Institute of Physics
Johannes Gutenberg University Mainz (JGU)
D 55099 Mainz, GERMANY
phone +49 6131 39-20493
fax +49 6131 39-20496
http://www.uni-mainz.de/presse/17448_ENG_HTML.php - press release
Petra Giegerich | idw - Informationsdienst Wissenschaft
Insect Antibiotic Provides New Way to Eliminate Bacteria
15.11.2018 | Universität Zürich
New findings help to better calculate the oceans’ contribution to climate regulation
15.11.2018 | Jacobs University Bremen gGmbH
Biochips have been developed at TU Wien (Vienna), on which tissue can be produced and examined. This allows supplying the tissue with different substances in a very controlled way.
Cultivating human cells in the Petri dish is not a big challenge today. Producing artificial tissue, however, permeated by fine blood vessels, is a much more...
Faster and secure data communication: This is the goal of a new joint project involving physicists from the University of Würzburg. The German Federal Ministry of Education and Research funds the project with 14.8 million euro.
In our digital world data security and secure communication are becoming more and more important. Quantum communication is a promising approach to achieve...
On Saturday, 10 November 2018, the research icebreaker Polarstern will leave its homeport of Bremerhaven, bound for Cape Town, South Africa.
When choosing materials to make something, trade-offs need to be made between a host of properties, such as thickness, stiffness and weight. Depending on the application in question, finding just the right balance is the difference between success and failure
Now, a team of Penn Engineers has demonstrated a new material they call "nanocardboard," an ultrathin equivalent of corrugated paper cardboard. A square...
Physicists at ETH Zurich demonstrate how errors that occur during the manipulation of quantum system can be monitored and corrected on the fly
The field of quantum computation has seen tremendous progress in recent years. Bit by bit, quantum devices start to challenge conventional computers, at least...
09.11.2018 | Event News
06.11.2018 | Event News
23.10.2018 | Event News
15.11.2018 | Life Sciences
15.11.2018 | Materials Sciences
14.11.2018 | Materials Sciences