Synthetic DNA mimic can assemble novel nanostructures

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Researchers have developed a method for self-assembling nanostructures with gamma-modified peptide nucleic acid, a synthetic mimic of DNA

Original source: Materials Today

Researchers at Carnegie Mellon University have developed a method for self-assembling nanostructures with gamma-modified peptide nucleic acid (γPNA), a synthetic mimic of DNA. The process has the potential to impact nanomanufacturing as well as future biomedical technologies like targeted diagnostics and drug delivery.

Reported in a paper in Nature Communications, the work introduces a science of γPNA nanotechnology that allows self-assembly in organic solvent solutions, the harsh environments used in peptide and polymer synthesis. This holds promise for nanofabrication and nanosensing.

The research team, led by Rebecca Taylor, assistant professor of mechanical engineering at Carnegie Mellon, reported that γPNA can form nanofibers up to 11µm in length (more than 1000 times longer than their width) in organic solvent solutions. These represent the first complex, all-PNA nanostructures to be formed in organic solvents.

Taylor, who heads the heads the Microsystems and MechanoBiology Lab at Carnegie Mellon, wants to leverage PNA’s ‘superpowers’. In addition to its higher thermal stability, γPNA retains the ability to bind to other nucleic acids in organic solvent mixtures that would typically destabilize structural DNA nanotechnology. This means they can form nanostructures in solvent environments that prevent the formation of DNA-based nanostructures.

Another property of γPNA is that it is less twisted than the double helix of DNA. The result of this difference is that the ‘rules’ for designing PNA-based nanostructures are different than the rules for designing structural DNA nanotechnology.

“As mechanical engineers, we were prepared for the challenge of solving a structural design problem,” Taylor said. “Due to the unusual helical twist, we had to come up with a new approach for weaving these pieces together.”

Because the researchers in Taylor’s lab seek to utilize dynamic shape change in their nanostructures, they were intrigued to discover that morphological changes – like stiffening or unraveling – occurred when they incorporated DNA into the γPNA nanostructures.

Other interesting characteristics the researchers want to explore further include solubility in water and aggregation. In water, these nanofibers tend to clump together. In organic solvent mixtures, however, the researchers found they can control whether or not structures aggregate, and Taylor believes that the aggregation is a feature that can be leveraged.

“These nanofibers follow the Watson-Crick binding rules of DNA, but they appear to act more and more like peptides and proteins as PNA structures grow in size and complexity. DNA structures repel each other, but these new materials do not, and potentially we can leverage this for creating responsive surface coatings,” said Taylor.

The synthetic γPNA molecule has been perceived as a simple DNA mimic having desirable properties such as high biostability and strong affinity for complementary nucleic acids.

“We believe through this work, we could additionally adjust this perception by highlighting the ability of γPNA to act as both – as a peptide mimic because of its pseudopeptide backbone and as a DNA mimic because of its sequence complementarity. This change in perception could allow us to understand the multiple identities this molecule can leverage in the world of PNA nanostructure design,” said Sriram Kumar, a mechanical engineering PhD candidate and first author of the paper.

Although PNA is already being used in ground-breaking gene therapy applications, there is still a lot to learn about this synthetic material’s potential. If complex PNA nanostructures can someday be formed in aqueous solutions, Taylor’s team hopes that additional applications will include enzyme-resistant nanomachines, including biosensors, diagnostics and nanorobots.

“PNA-peptide hybrids will create a whole new toolkit for scientists,” Taylor said.

The researchers used custom gamma modifications on PNA developed by Danith Ly’s lab at Carnegie Mellon. Future work will investigate left-handed γPNAs in the nanomanufacturing process; left-handed structures could be of particular interest for biomedical applications because they would not pose a risk of binding to cellular DNA.