Quadruplex knots as network nodes: nano-partitioning of guanosine derivates in supramolecular hydrogels

Nava, Giovanni; Carducci, Federica; Itri, Rosângela; Yoneda, Juliana Sakamoto; Bellini, Tommaso; Mariani, Paolo

doi:10.1039/c8sm02616e

Cited by 11 publications

(17 citation statements)

References 19 publications

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“…As a result of its high aqueous solubility, GMP alone does not form a gel at neutral pH. However, upon addition of phosphatefree guanosines, gelation occurs and the modulation of the GMP/guanosine ratio can be used to finetune the resulting material properties 106,107 .…”

Section: Wwwnaturecom/natrevchemmentioning

confidence: 99%

Applications of guanine quartets in nanotechnology and chemical biology

2019

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Section: Wwwnaturecom/natrevchemmentioning

confidence: 99%

Applications of guanine quartets in nanotechnology and chemical biology

2019

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“…G4 systems generate fibrous networks capable of entrapping large amounts of water, which allows the formation of self-supporting hydrogels. Since Gellert et al detailed that 5-GMP could generate self-assembled hydrogels in 1962, considerable advances have been made in the formation of stable Guo-based hydrogels due to their biological significance. ,− However, two disadvantages cannot be ignored: the low lifetime stability and the need for excess cations. − Thus, their use in many applications is currently hindered, but different strategies have been developed in recent years to enhance the properties of these hydrogels for biological purposes, especially for tissue engineering. ,, Importantly, because of the additional H-bonding edges and its ability to create π–π stacks, guanine has the highest self-assembly capability of the five nucleobases.…”

Section: Nucleoside-based Supramolecular Hydrogelsmentioning

confidence: 99%

Nucleoside-Based Supramolecular Hydrogels: From Synthesis and Structural Properties to Biomedical and Tissue Engineering Applications

Godoy-Gallardo

Merino-Gómez

Matiz

et al. 2022

ACS Biomater. Sci. Eng.

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Supramolecular hydrogels are of great interest in tissue scaffolding, diagnostics, and drug delivery due to their biocompatibility and stimuli-responsive properties. In particular, nucleosides are promising candidates as building blocks due to their manifold noncovalent interactions and ease of chemical modification. Significant progress in the field has been made over recent years to allow the use of nucleoside-based supramolecular hydrogels in the biomedical field, namely drug delivery and 3D bioprinting. For example, their long-term stability, printability, functionality, and bioactivity have been greatly improved by employing more than one gelator, incorporating different cations, including silver for antibacterial activity, or using additives such as boric acid or even biomolecules. This now permits their use as bioinks for 3D printing to produce cell-laden scaffolds with specified geometries and pore sizes as well as a homogeneous distribution of living cells and bioactive molecules. We have summarized the latest advances in nucleoside-based supramolecular hydrogels. Additionally, we discuss their synthesis, structural properties, and potential applications in tissue engineering and provide an outlook and future perspective on ongoing developments in the field.

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“…Knots and links may also occur between more than two components of DNA. For example, a recent work demonstrated that knots and links between four-helices of DNA (that were made by self-assembled G-quadruplexes formed by GMP and Guanosine) can be attributed to the formation of highly hydrated gels [ 11 ].…”

Section: Introductionmentioning

confidence: 99%

DNA-Topology Simplification by Topoisomerases

2021

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The topological properties of DNA molecules, supercoiling, knotting, and catenation, are intimately connected with essential biological processes, such as gene expression, replication, recombination, and chromosome segregation. Non-trivial DNA topologies present challenges to the molecular machines that process and maintain genomic information, for example, by creating unwanted DNA entanglements. At the same time, topological distortion can facilitate DNA-sequence recognition through localized duplex unwinding and longer-range loop-mediated interactions between the DNA sequences. Topoisomerases are a special class of essential enzymes that homeostatically manage DNA topology through the passage of DNA strands. The activities of these enzymes are generally investigated using circular DNA as a model system, in which case it is possible to directly assay the formation and relaxation of DNA supercoils and the formation/resolution of knots and catenanes. Some topoisomerases use ATP as an energy cofactor, whereas others act in an ATP-independent manner. The free energy of ATP hydrolysis can be used to drive negative and positive supercoiling or to specifically relax DNA topologies to levels below those that are expected at thermodynamic equilibrium. The latter activity, which is known as topology simplification, is thus far exclusively associated with type-II topoisomerases and it can be understood through insight into the detailed non-equilibrium behavior of type-II enzymes. We use a non-equilibrium topological-network approach, which stands in contrast to the equilibrium models that are conventionally used in the DNA-topology field, to gain insights into the rates that govern individual transitions between topological states. We anticipate that our quantitative approach will stimulate experimental work and the theoretical/computational modeling of topoisomerases and similar enzyme systems.

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Quadruplex knots as network nodes: nano-partitioning of guanosine derivates in supramolecular hydrogels

Abstract: Gua/GMP hydrogels are formed by disordered microcoils of intertwined filaments (knots, rich in gua) connected by long linear GMP-rich threads. Gua provides flexibility and thread attraction, responsible for hydrogel stability (AFM image is 2.5 × 2.5 μm).

Cited by 11 publications

References 19 publications

Applications of guanine quartets in nanotechnology and chemical biology

Applications of guanine quartets in nanotechnology and chemical biology

Nucleoside-Based Supramolecular Hydrogels: From Synthesis and Structural Properties to Biomedical and Tissue Engineering Applications

DNA-Topology Simplification by Topoisomerases

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