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Publications
Lea M. Wassermann; Michael Scheckenbach; Anna V. Baptist; Viktorija Glembockyte; Amelie Heuer-Jungemann
Full Site-Specific Addressability in DNA Origami-Templated Silica Nanostructures Journal Article
In: Advanced Materials, 2023.
@article{nokey,
title = {Full Site-Specific Addressability in DNA Origami-Templated Silica Nanostructures},
author = {Lea M. Wassermann and Michael Scheckenbach and Anna V. Baptist and Viktorija Glembockyte and Amelie Heuer-Jungemann},
url = {https://onlinelibrary.wiley.com/doi/10.1002/adma.202212024},
doi = {10.1002/adma.202212024},
year = {2023},
date = {2023-04-25},
urldate = {2023-04-25},
journal = {Advanced Materials},
abstract = {DNA nanotechnology allows for the fabrication of nanometer-sized objects with high precision and selective addressability as a result of the programmable hybridization of complementary DNA strands. Such structures can template the formation of other materials, including metals and complex silica nanostructures, where the silica shell simultaneously acts to protect the DNA from external detrimental factors. However, the formation of silica nanostructures with site-specific addressability has thus far not been explored. Here, it is shown that silica nanostructures templated by DNA origami remain addressable for post silicification modification with guest molecules even if the silica shell measures several nm in thickness. The conjugation of fluorescently labeled oligonucleotides is used to different silicified DNA origami structures carrying a complementary ssDNA handle as well as DNA-PAINT super-resolution imaging to show that ssDNA handles remain unsilicified and thus ensure retained addressability. It is also demonstrated that not only handles, but also ssDNA scaffold segments within a DNA origami nanostructure remain accessible, allowing for the formation of dynamic silica nanostructures. Finally, the power of this approach is demonstrated by forming 3D DNA origami crystals from silicified monomers. These results thus present a fully site-specifically addressable silica nanostructure with complete control over size and shape.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
DNA nanotechnology allows for the fabrication of nanometer-sized objects with high precision and selective addressability as a result of the programmable hybridization of complementary DNA strands. Such structures can template the formation of other materials, including metals and complex silica nanostructures, where the silica shell simultaneously acts to protect the DNA from external detrimental factors. However, the formation of silica nanostructures with site-specific addressability has thus far not been explored. Here, it is shown that silica nanostructures templated by DNA origami remain addressable for post silicification modification with guest molecules even if the silica shell measures several nm in thickness. The conjugation of fluorescently labeled oligonucleotides is used to different silicified DNA origami structures carrying a complementary ssDNA handle as well as DNA-PAINT super-resolution imaging to show that ssDNA handles remain unsilicified and thus ensure retained addressability. It is also demonstrated that not only handles, but also ssDNA scaffold segments within a DNA origami nanostructure remain accessible, allowing for the formation of dynamic silica nanostructures. Finally, the power of this approach is demonstrated by forming 3D DNA origami crystals from silicified monomers. These results thus present a fully site-specifically addressable silica nanostructure with complete control over size and shape.
Ece Büber; Tim Schröder; Michael Scheckenbach; Mihir Dass; Henri G Franquelim; Philip Tinnefeld
DNA Origami Curvature Sensors for Nanoparticle and Vesicle Size Determination with Single-Molecule FRET Readout Journal Article
In: ACS Nano, 2023, ISSN: 1936-086X.
@article{pmid36735241,
title = {DNA Origami Curvature Sensors for Nanoparticle and Vesicle Size Determination with Single-Molecule FRET Readout},
author = {Ece Büber and Tim Schröder and Michael Scheckenbach and Mihir Dass and Henri G Franquelim and Philip Tinnefeld},
doi = {10.1021/acsnano.2c11981},
issn = {1936-086X},
year = {2023},
date = {2023-02-01},
urldate = {2023-02-01},
journal = {ACS Nano},
abstract = {Particle size is an important characteristic of materials with a direct effect on their physicochemical features. Besides nanoparticles, particle size and surface curvature are particularly important in the world of lipids and cellular membranes as the cell membrane undergoes conformational changes in many biological processes which leads to diverging local curvature values. On account of that, it is important to develop cost-effective, rapid and sufficiently precise systems that can measure the surface curvature on the nanoscale that can be translated to size for spherical particles. As an alternative approach for particle characterization, we present flexible DNA nanodevices that can adapt to the curvature of the structure they are bound to. The curvature sensors use Fluorescence Resonance Energy Transfer (FRET) as the transduction mechanism on the single-molecule level. The curvature sensors consist of segmented DNA origami structures connected via flexible DNA linkers incorporating a FRET pair. The activity of the sensors was first demonstrated with defined binding to different DNA origami geometries used as templates. Then the DNA origami curvature sensors were applied to measure spherical silica beads having different size, and subsequently on lipid vesicles. With the designed sensors, we could reliably distinguish different sized nanoparticles within a size range of 50-300 nm as well as the bending angle range of 50-180°. This study helps with the development of more advanced modular-curvature sensing devices that are capable of determining the sizes of nanoparticles and biological complexes.},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Particle size is an important characteristic of materials with a direct effect on their physicochemical features. Besides nanoparticles, particle size and surface curvature are particularly important in the world of lipids and cellular membranes as the cell membrane undergoes conformational changes in many biological processes which leads to diverging local curvature values. On account of that, it is important to develop cost-effective, rapid and sufficiently precise systems that can measure the surface curvature on the nanoscale that can be translated to size for spherical particles. As an alternative approach for particle characterization, we present flexible DNA nanodevices that can adapt to the curvature of the structure they are bound to. The curvature sensors use Fluorescence Resonance Energy Transfer (FRET) as the transduction mechanism on the single-molecule level. The curvature sensors consist of segmented DNA origami structures connected via flexible DNA linkers incorporating a FRET pair. The activity of the sensors was first demonstrated with defined binding to different DNA origami geometries used as templates. Then the DNA origami curvature sensors were applied to measure spherical silica beads having different size, and subsequently on lipid vesicles. With the designed sensors, we could reliably distinguish different sized nanoparticles within a size range of 50-300 nm as well as the bending angle range of 50-180°. This study helps with the development of more advanced modular-curvature sensing devices that are capable of determining the sizes of nanoparticles and biological complexes.
Michael Scheckenbach; Tom Schubert; Carsten Forthmann; Viktorija Glembockyte; Philip Tinnefeld
Self-Regeneration and Self-Healing in DNA Origami Nanostructures Journal Article
In: Angewandte Chemie International Edition, vol. 60, no. 9, pp. 4931–4938, 2021.
@article{Scheckenbach2021,
title = {Self-Regeneration and Self-Healing in DNA Origami Nanostructures},
author = {Michael Scheckenbach and Tom Schubert and Carsten Forthmann and Viktorija Glembockyte and Philip Tinnefeld},
doi = {10.1002/anie.202012986},
year = {2021},
date = {2021-01-01},
urldate = {2021-01-01},
journal = {Angewandte Chemie International Edition},
volume = {60},
number = {9},
pages = {4931--4938},
publisher = {Wiley},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Michael Scheckenbach; Julian Bauer; Jonas Zähringer; Florian Selbach; Philip Tinnefeld
DNA origami nanorulers and emerging reference structures Journal Article
In: APL Materials, vol. 8, no. 11, pp. 110902, 2020.
@article{Scheckenbach2020,
title = {DNA origami nanorulers and emerging reference structures},
author = {Michael Scheckenbach and Julian Bauer and Jonas Zähringer and Florian Selbach and Philip Tinnefeld},
doi = {10.1063/5.0022885},
year = {2020},
date = {2020-11-01},
journal = {APL Materials},
volume = {8},
number = {11},
pages = {110902},
publisher = {AIP Publishing},
keywords = {},
pubstate = {published},
tppubtype = {article}
}