DNA Self-Assembling Nanostructures Induced by Trivalent Ions and Polycations

Kasyanenko, N. A.; Afanasieva, D. A.

doi:10.1007/978-1-4020-6829-4_3

Cited by 4 publications

(10 citation statements)

References 14 publications

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“…10,11,16 When trivalent ions interact with DNA, they bind to phosphate groups, what pre-cedes DNA condensation. 17 Approximately 90% of the DNA charge must be neutralized by cations for condensation to occur. 10 Synthetic polymers are promising DNA condensing agents, leading to the self-assembled DNA nanostructures 18 to be used in medical applications as gene vectors.…”

Section: Introductionmentioning

confidence: 99%

Conformational and phase transitions in DNA—photosensitive surfactant solutions: Experiment and modeling

et al. 2014

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DNA binding to trans- and cis-isomers of azobenzene containing cationic surfactant in 5 mM NaCl solution was investigated by the methods of dynamic light scattering (DLS), low-gradient viscometry (LGV), atomic force microscopy (AFM), circular dichroism (CD), gel electrophoresis (GE), flow birefringence (FB), UV-Vis spectrophotometry. Light-responsive conformational transitions of DNA in complex with photosensitive surfactant, changes in DNA optical anisotropy and persistent length, phase transition of DNA into nanoparticles induced by high surfactant concentration, as well as transformation of surfactant conformation under its binding to macromolecule were studied. Computer simulations of micelles formation for cis- and trans-isomers of azobenzene containing surfactant, as well as DNA-surfactant interaction, were carried out. Phase diagram for DNA-surfactant solutions was designed. The possibility to reverse the DNA packaging induced by surfactant binding with the dilution and light irradiation was shown.

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Section: Introductionmentioning

confidence: 99%

Conformational and phase transitions in DNA—photosensitive surfactant solutions: Experiment and modeling

et al. 2014

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“…They observed that the increase in valence of the cations led to more reduction in the DNA volume. 55 On the other hand, a different experiment reported that for the same cationic charge, smaller ions formed more compact and stable DNA condensates. 5 A possible explanation for this is that while polycations have higher valence and can aggregate the DNAs through stronger polyion bridging, 26 their larger size and the steric effect resulting from it can prevent them from forming more compact DNA aggregate as compared with small cations.…”

Section: Resultsmentioning

confidence: 99%

“…It is interesting to note that experimentally different conclusions also exist as to whether polycations can form more compact DNA aggregates as compared with small multivalent ions. In the experiments by Kasyanenko and Afanasieva, the DNA aggregation in the presence of different trivalent ions (Fe 3+ , La 3+ , [Co(NH 3 ) 6 ] 3+ , and spermidine ions) and cationic PLL molecules was compared. They observed that the increase in valence of the cations led to more reduction in the DNA volume .…”

Section: Resultsmentioning

confidence: 99%

“…In the experiments by Kasyanenko and Afanasieva, the DNA aggregation in the presence of different trivalent ions (Fe 3+ , La 3+ , [Co(NH 3 ) 6 ] 3+ , and spermidine ions) and cationic PLL molecules was compared. They observed that the increase in valence of the cations led to more reduction in the DNA volume . On the other hand, a different experiment reported that for the same cationic charge, smaller ions formed more compact and stable DNA condensates .…”

Section: Resultsmentioning

confidence: 99%

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Potential of Mean Force of Polyethylenimine-Mediated DNA Attraction

2012

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The aggregation of DNA molecules induced by cationic polymers is of importance to applications in gene delivery. In this work, we performed a series of umbrella sampling molecular dynamics simulations to calculate the potential of mean force (PMF) between two DNA molecules in the presence of polyethylenimine (PEI) molecules using the weighted histogram analysis method. The distance between the centers of mass of the two DNAs was chosen as the reaction coordinate, and the location and depth of the global minimum in the PMF curve were used to gauge the compactness and stability of the formed aggregate. The effects of PEI to DNA charge ratio (N/P charge ratio) and protonation state of the PEI were investigated. The DNA aggregation was found to be more favorable at higher PEI/DNA charge ratios and higher PEI protonation ratios. As compared with small multivalent ions, PEIs give rise to stronger DNA attraction even with an N/P charge ratio at which the DNAs are overneutralized. The effect of changing the protonation ratio on the compactness of the aggregate is more prominent than changing the N/P charge ratio, while the depth of the PMF well is more strongly influenced by the N/P charge ratio.

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“…It is known that divalent metal ions shield the charge of the DNA molecule more effectively. , Because they interact with the negatively charged oxygen atoms mainly through the water molecules, , they cannot cause DNA condensation even at their high concentration in solution. , In other words, for DNA condensation, it is necessary not only to have the effective shielding of negative charges, but also the reduction in the DNA hydrophilicity. Trivalent metal ions, as well as spermine and spermidine, induce DNA condensation in solutions. ,− They provide a certain structuring of the DNA molecular coil in a solution due to their binding to sites that are remote along the chain; it helps to overcome the polyelectrolyte swelling. − …”

Section: Introductionmentioning

confidence: 99%

Electrostatic Interactions in the Formation of DNA Complexes with Cis- and Trans-Isomers of Azobenzene-Containing Surfactants in Solutions with Di- and Trivalent Metal Ions

et al. 2023

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The effect of the presence of divalent and trivalent metal ions in solutions upon DNA packaging induced by the photosensitive azobenzene-containing surfactant is considered. It has been shown that the addition of divalent and trivalent metal ions does not affect the DNA–surfactant interaction for both the cis- and the trans-isomers of the surfactant. At the same time, the ionic strength of the solution, which is provided by a certain concentration of the salt, has a huge impact. It affects the association of surfactant molecules with each other and their binding to DNA. It has been shown by computer simulation that cobalt hexamine is attracted to the N7 atom of guanine in the major groove of DNA and does not penetrate into grooves near the AT base pairs.

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DNA Self-Assembling Nanostructures Induced by Trivalent Ions and Polycations

Cited by 4 publications

References 14 publications

Conformational and phase transitions in DNA—photosensitive surfactant solutions: Experiment and modeling

Conformational and phase transitions in DNA—photosensitive surfactant solutions: Experiment and modeling

Potential of Mean Force of Polyethylenimine-Mediated DNA Attraction

Electrostatic Interactions in the Formation of DNA Complexes with Cis- and Trans-Isomers of Azobenzene-Containing Surfactants in Solutions with Di- and Trivalent Metal Ions

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