Next Article in Journal
Novel Riboflavin-Inspired Conjugated Bio-Organic Semiconductors
Previous Article in Journal
Effect of Storage Time and Temperature on Phenolic Compounds of Soybean (Glycine max L.) Flour
Article Menu
Issue 9 (September) cover image

Export Article

Open AccessArticle
Molecules 2018, 23(9), 2270; https://doi.org/10.3390/molecules23092270

Two-Holder Strategy for Efficient and Selective Synthesis of Lk 1 ssDNA Catenane

1,†
,
1,†
,
1
,
1
,
1
,
1,2,* and 1,*
1
College of Food Science and Engineering, Ocean University of China, Nucleic Acids Chemistry and Biotechnology Laboratory, No. 5 Yushan Road, Shinan-qu, Qingdao 266003, China
2
Laboratory for Marine Drugs and Bioproducts, Qingdao National Laboratory for Marine Science and Technology, Qingdao 266235, China
These authors contribute equally to this paper.
*
Authors to whom correspondence should be addressed.
Academic Editor: Roger Strömberg
Received: 23 August 2018 / Revised: 31 August 2018 / Accepted: 5 September 2018 / Published: 5 September 2018
Full-Text   |   PDF [2120 KB, uploaded 7 September 2018]   |  

Abstract

DNA catenanes are characterized by their flexible and dynamic motions and have been regarded as one of the key players in sophisticated DNA-based molecular machines. There, the linking number (Lk) between adjacent interlocked rings is one of the most critical factors, since it governs the feasibility of dynamic motions. However, there has been no established way to synthesize catenanes in which Lk is controlled to a predetermined value. This paper reports a new methodology to selectively synthesize Lk 1 catenanes composed of single-stranded DNA rings, in which these rings can most freely rotate each other due to minimal inter-ring interactions. To the mixture for the synthesis, two holder strands (oligonucleotides of 18–46 nt) were added, and the structure of the quasi-catenane intermediate was interlocked through Watson–Crick base pairings into a favorable conformation for Lk 1 catenation. The length of the complementary part between the two quasi-rings was kept at 10 bp or shorter. Under these steric constraints, two quasi-rings were cyclized with the use of T4 DNA ligase. By this simple procedure, the formation of undesired topoisomers (Lk ≥ 2) was almost completely inhibited, and Lk 1 catenane was selectively prepared in high yield up to 70 mole%. These Lk 1 catenanes have high potentials as dynamic parts for versatile DNA architectures. View Full-Text
Keywords: DNA nanotechnology; catenane; topologically interlocked rings; linking number; nanostructure DNA nanotechnology; catenane; topologically interlocked rings; linking number; nanostructure
Figures

Figure 1

This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. (CC BY 4.0).
SciFeed

Share & Cite This Article

MDPI and ACS Style

Li, Q.; Li, J.; Cui, Y.; Liu, S.; An, R.; Liang, X.; Komiyama, M. Two-Holder Strategy for Efficient and Selective Synthesis of Lk 1 ssDNA Catenane. Molecules 2018, 23, 2270.

Show more citation formats Show less citations formats

Note that from the first issue of 2016, MDPI journals use article numbers instead of page numbers. See further details here.

Related Articles

Article Metrics

Article Access Statistics

1

Comments

[Return to top]
Molecules EISSN 1420-3049 Published by MDPI AG, Basel, Switzerland RSS E-Mail Table of Contents Alert
Back to Top