An information-bearing seed for nucleating algorithmic self-assembly Export

@article{citeulike:4217229, abstract = {10.1073/pnas.0808736106 Self-assembly creates natural mineral, chemical, and biological structures of great complexity. Often, the same starting materials have the potential to form an infinite variety of distinct structures; information in a seed molecule can determine which form is grown as well as where and when. These phenomena can be exploited to program the growth of complex supramolecular structures, as demonstrated by the algorithmic self-assembly of DNA tiles. However, the lack of effective seeds has limited the reliability and yield of algorithmic crystals. Here, we present a programmable DNA origami seed that can display up to 32 distinct binding sites and demonstrate the use of seeds to nucleate three types of algorithmic crystals. In the simplest case, the starting materials are a set of tiles that can form crystalline ribbons of any width; the seed directs assembly of a chosen width with >90\% yield. Increased structural diversity is obtained by using tiles that copy a binary string from layer to layer; the seed specifies the initial string and triggers growth under near-optimal conditions where the bit copying error rate is <0.2\%. Increased structural complexity is achieved by using tiles that generate a binary counting pattern; the seed specifies the initial value for the counter. Self-assembly proceeds in a one-pot annealing reaction involving up to 300 DNA strands containing >17 kb of sequence information. In sum, this work demonstrates how DNA origami seeds enable the easy, high-yield, low-error-rate growth of algorithmic crystals as a route toward programmable bottom-up fabrication.}, author = {Barish, Robert D. and Schulman, Rebecca and Rothemund, Paul W. K. and Winfree, Erik}, citeulike-article-id = {4217229}, citeulike-linkout-0 = {http://dx.doi.org/10.1073/pnas.0808736106}, citeulike-linkout-1 = {http://www.pnas.org/content/0808736106v1//.abstract}, citeulike-linkout-2 = {http://www.pnas.org/content/0808736106v1//.full.pdf}, citeulike-linkout-3 = {http://view.ncbi.nlm.nih.gov/pubmed/19321429}, citeulike-linkout-4 = {http://www.hubmed.org/display.cgi?uids=19321429}, day = {14}, doi = {10.1073/pnas.0808736106}, journal = {Proceedings of the National Academy of Sciences}, keywords = {dna, fabrication, nanotechnology, origami, self-assembly}, month = {April}, number = {15}, pages = {6054--6059}, posted-at = {2009-05-02 13:08:57}, priority = {2}, title = {An information-bearing seed for nucleating algorithmic self-assembly}, url = {http://dx.doi.org/10.1073/pnas.0808736106}, volume = {106}, year = {2009} }

TY - JOUR ID - citeulike:4217229 L3 - citeulike-article-id:4217229 N2 - 10.1073/pnas.0808736106 Self-assembly creates natural mineral, chemical, and biological structures of great complexity. Often, the same starting materials have the potential to form an infinite variety of distinct structures; information in a seed molecule can determine which form is grown as well as where and when. These phenomena can be exploited to program the growth of complex supramolecular structures, as demonstrated by the algorithmic self-assembly of DNA tiles. However, the lack of effective seeds has limited the reliability and yield of algorithmic crystals. Here, we present a programmable DNA origami seed that can display up to 32 distinct binding sites and demonstrate the use of seeds to nucleate three types of algorithmic crystals. In the simplest case, the starting materials are a set of tiles that can form crystalline ribbons of any width; the seed directs assembly of a chosen width with >90% yield. Increased structural diversity is obtained by using tiles that copy a binary string from layer to layer; the seed specifies the initial string and triggers growth under near-optimal conditions where the bit copying error rate is <0.2%. Increased structural complexity is achieved by using tiles that generate a binary counting pattern; the seed specifies the initial value for the counter. Self-assembly proceeds in a one-pot annealing reaction involving up to 300 DNA strands containing >17 kb of sequence information. In sum, this work demonstrates how DNA origami seeds enable the easy, high-yield, low-error-rate growth of algorithmic crystals as a route toward programmable bottom-up fabrication. IS - 15 JF - Proceedings of the National Academy of Sciences EP - 6059 TI - An information-bearing seed for nucleating algorithmic self-assembly VL - 106 SP - 6054 KW - dna KW - fabrication KW - nanotechnology KW - origami KW - self-assembly AU - Barish, Robert AU - Schulman, Rebecca AU - Rothemund, Paul AU - Winfree, Erik PY - 2009/04/14/ UR - http://dx.doi.org/10.1073/pnas.0808736106 ER -