High-resolution AFM structure of DNA G-wires in aqueous solution
We investigate the self-assembly of short pieces of the Tetrahymena telomeric DNA sequence d[G4T2G4] in physiologically relevant aqueous solution using atomic force microscopy (AFM). Wire-like structures (G-wires) of 3.0 nm height with well-defined surface periodic features were observed. Analysis o...
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sg-ntu-dr.10356-870432023-02-28T19:34:51Z High-resolution AFM structure of DNA G-wires in aqueous solution Bose, Krishnashish Lech, Christopher Jacques Heddi, Brahim Phan, Anh Tuân School of Physical and Mathematical Sciences Atomic Force Microscopy DNA We investigate the self-assembly of short pieces of the Tetrahymena telomeric DNA sequence d[G4T2G4] in physiologically relevant aqueous solution using atomic force microscopy (AFM). Wire-like structures (G-wires) of 3.0 nm height with well-defined surface periodic features were observed. Analysis of high-resolution AFM images allowed their classification based on the periodicity of these features. A major species is identified with periodic features of 4.3 nm displaying left-handed ridges or zigzag features on the molecular surface. A minor species shows primarily left-handed periodic features of 2.2 nm. In addition to 4.3 and 2.2 nm ridges, background features with periodicity of 0.9 nm are also observed. Using molecular modeling and simulation, we identify a molecular structure that can explain both the periodicity and handedness of the major G-wire species. Our results demonstrate the potential structural diversity of G-wire formation and provide valuable insight into the structure of higher-order intermolecular G-quadruplexes. Our results also demonstrate how AFM can be combined with simulation to gain insight into biomolecular structure. NRF (Natl Research Foundation, S’pore) MOE (Min. of Education, S’pore) Published version 2018-07-27T03:42:08Z 2019-12-06T16:33:53Z 2018-07-27T03:42:08Z 2019-12-06T16:33:53Z 2018 Journal Article Bose, K., Lech, C. J., Heddi, B., & Phan, A. T. (2018). High-resolution AFM structure of DNA G-wires in aqueous solution. Nature Communications, 9(1), 1959-. https://hdl.handle.net/10356/87043 http://hdl.handle.net/10220/45293 10.1038/s41467-018-04016-y en Nature Communications © 2018 The Author(s). This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/. 9 p. application/pdf |
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Atomic Force Microscopy DNA Bose, Krishnashish Lech, Christopher Jacques Heddi, Brahim Phan, Anh Tuân High-resolution AFM structure of DNA G-wires in aqueous solution |
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We investigate the self-assembly of short pieces of the Tetrahymena telomeric DNA sequence d[G4T2G4] in physiologically relevant aqueous solution using atomic force microscopy (AFM). Wire-like structures (G-wires) of 3.0 nm height with well-defined surface periodic features were observed. Analysis of high-resolution AFM images allowed their classification based on the periodicity of these features. A major species is identified with periodic features of 4.3 nm displaying left-handed ridges or zigzag features on the molecular surface. A minor species shows primarily left-handed periodic features of 2.2 nm. In addition to 4.3 and 2.2 nm ridges, background features with periodicity of 0.9 nm are also observed. Using molecular modeling and simulation, we identify a molecular structure that can explain both the periodicity and handedness of the major G-wire species. Our results demonstrate the potential structural diversity of G-wire formation and provide valuable insight into the structure of higher-order intermolecular G-quadruplexes. Our results also demonstrate how AFM can be combined with simulation to gain insight into biomolecular structure. |
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School of Physical and Mathematical Sciences |
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School of Physical and Mathematical Sciences Bose, Krishnashish Lech, Christopher Jacques Heddi, Brahim Phan, Anh Tuân |
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Article |
author |
Bose, Krishnashish Lech, Christopher Jacques Heddi, Brahim Phan, Anh Tuân |
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Bose, Krishnashish |
title |
High-resolution AFM structure of DNA G-wires in aqueous solution |
title_short |
High-resolution AFM structure of DNA G-wires in aqueous solution |
title_full |
High-resolution AFM structure of DNA G-wires in aqueous solution |
title_fullStr |
High-resolution AFM structure of DNA G-wires in aqueous solution |
title_full_unstemmed |
High-resolution AFM structure of DNA G-wires in aqueous solution |
title_sort |
high-resolution afm structure of dna g-wires in aqueous solution |
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2018 |
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https://hdl.handle.net/10356/87043 http://hdl.handle.net/10220/45293 |
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