Revealing thermodynamics of DNA origami folding via affine transformations

被引：13

作者：

Majikes, Jacob M. ^{[1
]}

Patrone, Paul N. ^{[1
]}

Schiffels, Daniel ^{[1
]}

Zwolak, Michael ^{[1
]}

Kearsley, Anthony J. ^{[1
]}

Forry, Samuel P. ^{[1
]}

Liddle, J. Alexander ^{[1
,2
]}

机构：

[1] NIST, Gaithersburg, MD 20899 USA

[2] 100 Bur Dr, Gaithersburg, MD 20899 USA

来源：

NUCLEIC ACIDS RESEARCH | 2020年 / 48卷 / 10期

关键词：

NANOSCALE SHAPES; GAPPED DNA; FLEXIBILITY; CYCLIZATION; PATHWAY; DESIGN;

D O I：

10.1093/nar/gkaa283

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

Structural DNA nanotechnology, as exemplified by DNA origami, has enabled the design and construction of molecularly-precise objects for amyriad of applications. However, limitations in imaging, and other characterization approaches, make a quantitative understanding of the folding process challenging. Such an understanding is necessary to determine the origins of structural defects, which constrain the practical use of these nanostructures. Here, we combine careful fluorescent reporter design with a novel affine transformation technique that, together, permit the rigorous measurement of folding thermodynamics. This method removes sources of systematic uncertainty and resolves problems with typical background-correction schemes. This in turn allows us to examine entropic corrections associated with folding and potential secondary and tertiary structure of the scaffold. Our approach also highlights the importance of heat-capacity changes during DNA melting. In addition to yielding insight into DNA origami folding, it is well-suited to probing fundamental processes in related self-assembling systems.

引用

页码：5268 / 5280

页数：13