Dataset Information

DNA Compaction and Charge Inversion Induced by Organic Monovalent Ions.

ABSTRACT: DNA condensation and charge inversion usually occur in solutions of multivalent counterions. In the present study, we show that the organic monovalent ions of tetraphenyl chloride arsenic (Ph₄As⁺) can induce DNA compaction and even invert its electrophoretic mobility by single molecular methods. The morphology of condensed DNA was directly observed by atomic force microscopy (AFM) in the presence of a low concentration of Ph₄As⁺ in DNA solution. The magnetic tweezers (MT) measurements showed that DNA compaction happens at very low Ph₄As⁺ concentration (≤1 μM), and the typical step-like structures could be found in the extension-time curves of tethering DNA. However, when the concentration of Ph₄As⁺ increased to 1 mM, the steps disappeared in the pulling curves and globular structures could be found in the corresponding AFM images. Electrophoretic mobility measurement showed that charge inversion of DNA induced by the monovalent ions happened at 1.6 mM Ph₄As⁺, which is consistent with the prediction based on the strong hydrophobicity of Ph₄As⁺. We infer that the hydrophobic effect is the main driving force of DNA charge inversion and compaction by the organic monovalent ion.

SUBMITTER: Xia W

PROVIDER: S-EPMC6431901 | biostudies-literature | 2017 Mar

REPOSITORIES: biostudies-literature

ACCESS DATA

Publications

DNA Compaction and Charge Inversion Induced by Organic Monovalent Ions.

Xia Wenyan W Wang Yanwei Y Yang Anthony A Yang Guangcan G

Polymers 20170330 4

DNA condensation and charge inversion usually occur in solutions of multivalent counterions. In the present study, we show that the organic monovalent ions of tetraphenyl chloride arsenic (Ph₄As⁺) can induce DNA compaction and even invert its electrophoretic mobility by single molecular methods. The morphology of condensed DNA was directly observed by atomic force microscopy (AFM) in the presence of a low concentration of Ph₄As⁺ in DNA solution. The magnetic tweezers (MT) measurements showed tha ...[more]

PMID: 30970807

Similar Datasets

Project description:The effect of monovalent ions on both the reactivity and global folding of the 8-17 DNAzyme is investigated, and the results are compared with those of the hammerhead ribozyme, which has similar size and secondary structure. In contrast to the hammerhead ribozyme, the 8-17 DNAzyme activity is not detectable in the presence of 4 M K(+), Rb(+), or Cs(+) or in the presence of 80 mM, [Co(NH(3))(6)](3+). Only 4 M Li(+), NH(4)(+) and, to a lesser extent, Na(+) conferred detectable activity. The observed rate constants (k(obs) approximately 10(-3) min(-1) for Li(+) and NH(4)(+)) are approximately 1000-fold lower than that in the presence of 10 mM Mg(2+), and approximately 200,000-fold slower than that in the presence of 100 microM Pb(2+). Since the hammerhead ribozyme displays monovalent ion-dependent activity that is often within approximately 10-fold of divalent metal ion-dependent activity, these results suggest that the 8-17 DNAzyme, obtained by in vitro selections, has evolved to have a more stringent divalent metal ion requirement for high activity as compared to the naturally occurring ribozymes, making the 8-17 DNAzyme an excellent choice as a Pb(2+) sensor with high selectivity. In contrast to the activity data, folding was observed in the presence of all the monovalent ions investigated, although those monovalent ions that do not support DNAzyme activity have weaker binding affinity (K(d) approximately 0.35 M for Rb(+) and Cs(+)), while those that confer DNAzyme activity possess stronger affinity (K(d) approximately 0.22 M for Li(+), Na(+) and NH(4)(+)). In addition, a correlation between metal ion charge density, binding affinity and enzyme activity was found among mono- and divalent metal ions except Pb(2+); higher charge density resulted in stronger affinity and higher activity, suggesting that the observed folding and activity is at least partially due to electrostatic interactions between ions and the DNAzyme. Finally, circular dichroism (CD) study has revealed Z-DNA formation with the monovalent metal ions, Zn(2+) and Mg(2+); the K(d) values obtained using CD were in the same range as those obtained from folding studies using FRET. However, Z-DNA formation was not observed with Pb(2+). These results indicate that Pb(2+)-dependent function follows a different mechanism from the monovalent metal ions and other divalent metal ions; in the presence of latter metal ions, metal-ion dependent folding and structural changes, including formation of Z-DNA, play an important role in the catalytic function of the 8-17 DNAzyme.

Dataset Information

DNA Compaction and Charge Inversion Induced by Organic Monovalent Ions.

Publications

DNA Compaction and Charge Inversion Induced by Organic Monovalent Ions.

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure

Tweets