Aarhus University Seal / Aarhus Universitets segl

Researchers create synthetic nanopores made from DNA

A scientific collaboration led by researchers at iNANO/Department of Molecular Biology and Genetics at Aarhus University and the Department of Chemistry at the University of Copenhagen has resulted in the construction of a synthetic DNA nanopore capable of selectively translocating protein-size macromolecules across lipid bilayers.

2019.12.13 | Anne Færch Nielsen and Rasmus Peter Thomsen

In the future, the newly discovered mechanism will potentially enable insertion of the sensor specifically into diseased cells and may allow diagnosis at the single cell level. Figure: Rasmus Peter Thomsen/AU.

In the future, the newly discovered mechanism will potentially enable insertion of the sensor specifically into diseased cells and may allow diagnosis at the single cell level. Figure: Rasmus Peter Thomsen/AU.

The researchers from Aarhus University behind the scientific article (from left): Rasmus P. Thomsen, Jørgen Kjems and Rasmus Schøler Sørensen. Photo: Anne Færch Nielsen/AU.

The researchers from Aarhus University behind the scientific article (from left): Rasmus P. Thomsen, Jørgen Kjems and Rasmus Schøler Sørensen. Photo: Anne Færch Nielsen/AU.

In 2015, the first commercial nanopore DNA sequencing device was introduced by Oxford Nanopore Technologies. Based on a synthetically engineered transmembrane protein, nanopore sequencing allows long DNA strands to be channelled through the central lumen of the pore where changes in the ionic current work as a sensor of the individual bases in the DNA. This technique was a key milestone for DNA sequencing and the achievement was only made possible after decades of research.

Since then, researchers have tried to extend this principle and build larger pores to accommodate proteins for sensing purposes, but a major challenge has been the limited understanding of artificial protein design. As an alternative, a new technique based on artificial folding of DNA into complex structures, the so-called 3D-origami technique, first reported by the AU group in 2009, has emerged. Compared to proteins, DNA origami has been shown to have an unprecedented design space for constructing nanostructures that mimic and extend naturally occurring complexes.

In a new article, published in Nature Communications, the researchers now report the creation of a large synthetic nanopore made from DNA. This nanopore structure is capable of translocating large protein-sized macromolecules between compartments separated by a lipid bilayer. In addition, a functional gating system was introduced inside the pore to enable biosensing of very few molecules in solution.

With the use of powerful optical microscopes, the researchers could follow the flow of molecules through individual nanopores. By introducing a controllable plug in the pore, it was furthermore possible to size-selectively control the flow of protein-size molecules and demonstrate label-free, real time, bio-sensing of a trigger molecule.

Lastly the pore was equipped with a set of controllable flaps, allowing targeted insertion into membranes displaying particular signal molecules. In the future, this mechanism will potentially enable insertion of the sensor specifically into diseased cells and may allow diagnosis at the single cell level.

More information

The work was financially supported by the Villum foundationthe Danish National Research Foundation, and the Carlsberg Foundation.

The research was carried out by researchers from Interdisciplinary Nanoscience Center (iNANO), and Department of Molecular Biology and Genetics at Aarhus University (AU), in collaboration with researchers from Nano-Science Center and Department of Chemistry, Copenhagen University. Professor Jørgen Kjems (iNANO and Department of Molecular Biology and Genetics, AU) and Associate Professor Nikos Hatzakis (Nano-Science Center and Department of Chemistry, Copenhagen University) were in charge of the research team.

Read more about the results in Nature Communications:
Thomsen, Rasmus P.; Malle, Mette G.; Okholm, Anders H.; Krishnan, Swati; Bohr, Søren S.-R.; Sørensen, Rasmus S.; Ries, Oliver; Vogel, Stefan; Simmel, Friedrich C.; Hatzakis, Nikos S., & Kjems, Jørgen. A large size-selective DNA nanopore with sensing applications. Nat Commun2019. doi: 10.1038/s41467-019-13284-1. 


For further information, please contact

Professor Jørgen Kjems
Interdisciplinary Nanoscience Center and Department of Molecular Biology and Genetics
Aarhus University
jk@mbg.au.dk - +45 87155494

Associate Professor Nikos Hatzakis
Nano-Science Center and Department of Chemistry
University of Copenhagen
Hatzakis@chem.ku.dk  - +45 50202951

iNano