Nanofabrication Yields. Hybridization and Click-Fixation of Polycyclic DNA Nanoassemblies
Artikel i vetenskaplig tidskrift, 2011

We demonstrate the stepwise assembly of a fully addressable polycyclic DNA hexagon nanonetwork for the preparation of a lour-ring system, one of the biggest networks yet constructed from tripodal building blocks. We find that the yield exhibits a distinct upper level <100%, a fundamental problem of thermodynamic DNA assembly that appears to have been overlooked in the DNA nanotechnology literatum A simplistic model based on a single step-yield parameter y can quantitatively describe the total yield of DNA assemblies in one-pot reactions as Y = Y(duplex)(n), with n the number of hybridization steps. Experimental errors introducing deviations from perfect stoichlometry and the thermodynamics of hybridization equilibria contribute to decreasing the value of y(duplex) (on average y = 0.96 for our 10 base pair hybridization). For the four-ring system (n = 31), the total yield is thus less than 30%, which is clearly unsatisfactory if bigger nanoconstructs of this class are to be designed. Therefore, we introduced site-specific click chemistry for making and purifying robust building blocks for future modular constructs of larger assemblies. Although the present yield of this robust module was only about 10%, it demonstrates a first step toward a general fabrication approach. Interestingly, we find that the click yields follow quantitatively a binomial distribution, the predictability of which Indicates the usefulness of preparing pools of pure and robust building blocks in this way. The binomial behavior indicates that there is no interference between the six simultaneous click reactions but That step-yield limiting factors such as topological constraints and Cu(I) catalyst concentration are local and independent.

fixation technology

TERMINAL ALKYNES

NANOSTRUCTURES

STABILITY

DESIGN

TETRAHEDRON

DNA nanostructure click chemistry

supramolecular assembly

yield

NANOSCALE SHAPES

ORIGAMI

DEVICE

NUCLEIC-ACID JUNCTIONS

FOLDING DNA

analysis

Författare

Erik Lundberg

Chalmers, Kemi- och bioteknik, Fysikalisk kemi

Calin Plesa

Chalmers, Kemi- och bioteknik, Fysikalisk kemi

Marcus Wilhelmsson

Chalmers, Kemi- och bioteknik, Fysikalisk kemi

Per Lincoln

Chalmers, Kemi- och bioteknik, Fysikalisk kemi

T. Brown

University of Southampton

Bengt Nordén

Chalmers, Kemi- och bioteknik, Fysikalisk kemi

ACS Nano

1936-0851 (ISSN) 1936-086X (eISSN)

Vol. 5 9 7565-7575

Styrkeområden

Nanovetenskap och nanoteknik

Energi

Livsvetenskaper och teknik

Materialvetenskap

Ämneskategorier

Fysikalisk kemi

Organisk kemi

DOI

10.1021/nn202568q

Mer information

Senast uppdaterat

2018-02-28