Faculty Profiles - ZINCHENKO, Anatoly

Papers - ZINCHENKO, Anatoly

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A Novel Type Cationic Silica Nanoparticles and its Potential Application in Biomedicine Reviewed

Li L., Takenaka T., Zinchenko A., Chen N., Ma Y., Yoshikawa K.

Proceedings of International Conference on Bioinformatics and Biomedical Engineering (ICBBE) 2008 page： 1539-1542 2008

Single-Molecule Observations of Giant DNA and Synthetic Polyelectrolyte by Labeling with Semiconductor "Quantum Dots" Reviewed

Chen N., Yamazaki Y., Zinchenko A., Yoshikawa Y., Murata S., Yoshikawa K.

Proceedings of International Symposium on Micro-Nano Mechatronics and Human Science page： 140-144 2008

Transcription of Giant DNA Complexed with Cationic Nanoparticles as a Simple Model of Chromatin Reviewed

Zinchenko A. A., Luckel F., Yoshikawa K.

Biophysical Journal Vol. 92 page： 1318-1325 2007

Dynamic Conformational Behavior and Molecular Interaction Discrimination of DNA/Binder Complexes by Single-Chain Stretching in a MicroDevice Reviewed

Huang W.-H., Zinchenko A. A., Pawlak C., Chen Y., Baigl D.

ChemBioChem Vol. 8 ( 15 ) page： 1771-1774 2007

Visualization of Different Pathways of DNA Release from Interpolyelectrolyte Complex Reviewed

Ayoubi M. A., Zinchenko A. A., Philippova O. E, Khokhlov A. R., Yoshikawa K.

Journal of Physical Chemistry B Vol. 111 page： 8378-8378 2007

Language：English Publishing type：Research paper (scientific journal)

Fluorescence microscopy is used for visualizing the release of double-stranded DNA from its interpolyelectrolyte complex with positively charged poly(allylamine hydrochloride) though exchange reaction with added polyanion, poly(sodium styrenesulfonate). The switching of pathway of DNA release is due to the screening of electrostatic repulsion in charged sequences of naked DNA and the decrease of the osmotic pressure of counterions.

Single-Chain Compaction of Long Duplex DNA by Cationic Nanoparticles: Modes of Interaction and Comparison with Chromatin Reviewed

Zinchenko A. A, Sakaue T, Araki S, Yoshikawa K, Baigl D

Journal of Physical Chemistry B Vol. 111 page： 3019 -3031 2007

Language：English Publishing type：Research paper (scientific journal)

The compaction of long duplex DNA by cationic nanoparticles (NP) used as a primary model of histone core particles has been investigated. We have systematically studied the effect of salt concentration, particle size, and particle charge by means of single-molecule observations-fluorescence microscopy (FM) and transmission electron microscopy (TEM)-and molecular dynamics (MD) simulations. We have found that the large-scale DNA compaction is progressive and proceeds through the formation of beads-on-a-string structures of various morphologies. The DNA adsorbed amount per particle depends weakly on NP concentration but increases significantly with an increase in particle size and is optimal at an intermediate salt concentration. Three different complexation mechanisms have been identified depending on the correlation between DNA and NPs in terms of geometry, chain rigidity, and electrostatic interactions: free DNA adsorption onto NP surface, DNA wrapping around NP, and NP collection on DNA chain.

Compaction of DNA on nanoscale three-dimensional templates Invited

Zinchenko A. A., Chen N.

Journal of Physics: Condensed Matter Vol. 18 page： R453-R480 2006

Na+ more strongly inhibits DNA compaction by spermidine (3+) than K+ Reviewed

Hibino K, Yoshikawa Y, Murata S, Saito T, Zinchenko A. A, Yoshikawa K

Chemical Physics Letters Vol. 426 page： 405-409 2006

Probing Biopolymer Conformation by Metallization with Noble Metals Reviewed

Chen N, Zinchenko A. A, Yoshikawa K

Nanotechnology Vol. 17 page： 5224-5232 2006

*Compaction of single-chain DNA by histone-inspired nanoparticles Reviewed

Zinchenko A. A., Yoshikawa K., Baigl D

Physical Review Letters Vol. 95 ( 22 ) page： 228101 2005

DNA-templated silver nanorings Reviewed

Zinchenko A. A., Yoshikawa K., Baigl D.

Adv. Mater. Vol. 17 ( 23 ) page： 2820-2823 2005

How Does DNA Compaction Favor Chiral Selectivity with Cationic Species? Higher Selectivity with Lower Cationic Charge Reviewed

Zinchenko A. A., Chen N., Murata S., Yoshikawa K.

ChemBioChem Vol. 6(8) page： 1419-1422 2005

Specific Formation of Beads-on-a-Chain Structures on Giant DNA Using a Designed Polyamine Derivative Reviewed

Chen N., Zinchenko A. A., Murata S., Yoshikawa K.

J. Am. Chem. Soc. Vol. 127 page： 10910-10916 2005

Na+ Shows a Markedly Higher Potential than K+ in DNA Compaction in a Crowded Environment Reviewed

Zinchenko A. A., Yoshikawa K.

Biophys. J. Vol. 88(6) page： 4118-4123 2005

DNA Compaction by the Divalent Cations: Structural Specificity Revealed by the Potentiality of the Designed Quaternary Diammonium Salts, Reviewed

Zinchenko A. A., Sergeyev V. G., Yamabe K., Murata S., Yoshikawa K.

ChemBioChem Vol. 5 ( 3 ) page： 360-368 2004

Stereoisomeric Discrimination in DNA Compaction Reviewed

Zinchenko A. A, Sergeyev V. G, Kabanov V. A, Murata S, Yoshikawa K

Angewandte Chemie International Edition Vol. 43 ( 18 ) page： 2378-2371 2004

Controlling the Intrachain Segregation on a Single DNA Molecule Reviewed

Zinchenko A. A., Sergeyev V. G., Murata S., Yoshikawa K.

J. Am. Chem. Soc. Vol. 125 ( 15 ) page： 4414 - 4415 2003

Mechanism of Interaction of DNA with Surfactants in Water-Alcohol Media and Structure of the Related Complexes Reviewed

Sergeyev V. G., Pyshkina O. A., Zinchenko A. A., Zezin S. B., Zezin A. B., Kabanov V. A.

Polymer Science, Seriya A Vol. 45 ( 5 ) page： 814 - 822 2003

Ascorbic acid induces a marked conformational change in long duplex DNA Reviewed

Yoshikawa Y., Suzuki M., Chen N., Zinchenko A. A., Murata S., Kanbe T., Nakai T., Oana H., Yoshikawa K.

European Journal of Biochemistry Vol. 270 ( 14 ) page： 3101-3106 2003

Secondary Structure of DNA is Recognized by Slightly Cross-Linked Cationic Hydrogel Reviewed

Sergeyev V. G, Novoskoltseva O. A, Zinchenko O. A, Pyshkina O. A, Rogacheva V. B, Zezin A. B, Yoshikawa K, Kabanov V. A

J. Am. Chem. Soc. Vol. 124 page： 11324-11333 2002

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Papers - ZINCHENKO, Anatoly