Controlled nucleation and growth of DNA tile arrays within prescribed DNA origami frames and their dynamics

Wei Li, Yang Yang, Shuoxing Jiang, Hao Yan, Yan Liu

Research output: Contribution to journalArticle

13 Citations (Scopus)

Abstract

Controlled nucleation of nanoscale building blocks by geometrically defined seeds implanted in DNA nanoscaffolds represents a unique strategy to study and understand the dynamic processes of molecular self-assembly. Here we utilize a two-dimensional DNA origami frame with a hollow interior and selectively positioned DNA hybridization seeds to control the self-assembly of DNA tile building blocks, where the small DNA tiles are directed to fill the interior of the frame through prescribed sticky end interactions. This design facilitates the construction of DNA origami/array hybrids that adopt the overall shape and dimensions of the origami frame, forming a 2D array in the core consisting of a large number of simple repeating DNA tiles. The formation of the origami/array hybrid was characterized with atomic force microscopy, and the nucleation dynamics were monitored by serial AFM scanning and fluorescence spectroscopy, which revealed faster kinetics of growth within the frame as compared to growth without the presence of a frame. Our study provides insight into the fundamental behavior of DNA-based self-assembling systems.

Original languageEnglish
Pages (from-to)3724-3727
Number of pages4
JournalJournal of the American Chemical Society
Volume136
Issue number10
DOIs
Publication statusPublished - Mar 12 2014

Fingerprint

Tile
Oligonucleotide Array Sequence Analysis
DNA
Nucleation
Growth
Seeds
Self assembly
Seed
Atomic Force Microscopy
Fluorescence Spectrometry
Interiors (building)
Molecular Dynamics Simulation
Fluorescence spectroscopy
Atomic force microscopy
Scanning
Kinetics

ASJC Scopus subject areas

  • Chemistry(all)
  • Catalysis
  • Biochemistry
  • Colloid and Surface Chemistry

Cite this

Controlled nucleation and growth of DNA tile arrays within prescribed DNA origami frames and their dynamics. / Li, Wei; Yang, Yang; Jiang, Shuoxing; Yan, Hao; Liu, Yan.

In: Journal of the American Chemical Society, Vol. 136, No. 10, 12.03.2014, p. 3724-3727.

Research output: Contribution to journalArticle

@article{537d95edfc694b008ddfd47393f98d63,
title = "Controlled nucleation and growth of DNA tile arrays within prescribed DNA origami frames and their dynamics",
abstract = "Controlled nucleation of nanoscale building blocks by geometrically defined seeds implanted in DNA nanoscaffolds represents a unique strategy to study and understand the dynamic processes of molecular self-assembly. Here we utilize a two-dimensional DNA origami frame with a hollow interior and selectively positioned DNA hybridization seeds to control the self-assembly of DNA tile building blocks, where the small DNA tiles are directed to fill the interior of the frame through prescribed sticky end interactions. This design facilitates the construction of DNA origami/array hybrids that adopt the overall shape and dimensions of the origami frame, forming a 2D array in the core consisting of a large number of simple repeating DNA tiles. The formation of the origami/array hybrid was characterized with atomic force microscopy, and the nucleation dynamics were monitored by serial AFM scanning and fluorescence spectroscopy, which revealed faster kinetics of growth within the frame as compared to growth without the presence of a frame. Our study provides insight into the fundamental behavior of DNA-based self-assembling systems.",
author = "Wei Li and Yang Yang and Shuoxing Jiang and Hao Yan and Yan Liu",
year = "2014",
month = "3",
day = "12",
doi = "10.1021/ja411446q",
language = "English",
volume = "136",
pages = "3724--3727",
journal = "Journal of the American Chemical Society",
issn = "0002-7863",
publisher = "American Chemical Society",
number = "10",

}

TY - JOUR

T1 - Controlled nucleation and growth of DNA tile arrays within prescribed DNA origami frames and their dynamics

AU - Li, Wei

AU - Yang, Yang

AU - Jiang, Shuoxing

AU - Yan, Hao

AU - Liu, Yan

PY - 2014/3/12

Y1 - 2014/3/12

N2 - Controlled nucleation of nanoscale building blocks by geometrically defined seeds implanted in DNA nanoscaffolds represents a unique strategy to study and understand the dynamic processes of molecular self-assembly. Here we utilize a two-dimensional DNA origami frame with a hollow interior and selectively positioned DNA hybridization seeds to control the self-assembly of DNA tile building blocks, where the small DNA tiles are directed to fill the interior of the frame through prescribed sticky end interactions. This design facilitates the construction of DNA origami/array hybrids that adopt the overall shape and dimensions of the origami frame, forming a 2D array in the core consisting of a large number of simple repeating DNA tiles. The formation of the origami/array hybrid was characterized with atomic force microscopy, and the nucleation dynamics were monitored by serial AFM scanning and fluorescence spectroscopy, which revealed faster kinetics of growth within the frame as compared to growth without the presence of a frame. Our study provides insight into the fundamental behavior of DNA-based self-assembling systems.

AB - Controlled nucleation of nanoscale building blocks by geometrically defined seeds implanted in DNA nanoscaffolds represents a unique strategy to study and understand the dynamic processes of molecular self-assembly. Here we utilize a two-dimensional DNA origami frame with a hollow interior and selectively positioned DNA hybridization seeds to control the self-assembly of DNA tile building blocks, where the small DNA tiles are directed to fill the interior of the frame through prescribed sticky end interactions. This design facilitates the construction of DNA origami/array hybrids that adopt the overall shape and dimensions of the origami frame, forming a 2D array in the core consisting of a large number of simple repeating DNA tiles. The formation of the origami/array hybrid was characterized with atomic force microscopy, and the nucleation dynamics were monitored by serial AFM scanning and fluorescence spectroscopy, which revealed faster kinetics of growth within the frame as compared to growth without the presence of a frame. Our study provides insight into the fundamental behavior of DNA-based self-assembling systems.

UR - http://www.scopus.com/inward/record.url?scp=84896265266&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=84896265266&partnerID=8YFLogxK

U2 - 10.1021/ja411446q

DO - 10.1021/ja411446q

M3 - Article

C2 - 24575893

AN - SCOPUS:84896265266

VL - 136

SP - 3724

EP - 3727

JO - Journal of the American Chemical Society

JF - Journal of the American Chemical Society

SN - 0002-7863

IS - 10

ER -