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Phase Transitions in the Higher Order Structure of Giant DNA

Research Project

Project/Area Number 08044069
Research Category

Grant-in-Aid for international Scientific Research

Allocation TypeSingle-year Grants
SectionJoint Research
Research Field Biophysics
Research InstitutionNagoya University

Principal Investigator

YOSHIKAWA Kenichi  Graduate School of Human Informatics, Nagoya University, Professor, 大学院・人間情報学研究科, 教授 (80110823)

Co-Investigator(Kenkyū-buntansha) VASILEVSKAYA V.V.  Nesmeyanov Institute of Organoelement Compounds, Russian Academy of Sciences, Le, ネスメヤノB有機素子化合物研究所, 上級研究員
KHOKHLOV A.R.  Nesmeyanov Institute of Organoelement Compounds, Russian Academy of Sciences, Pr, ネスメヤノフ有機素子化合物研究所, 教授
KUMAZAWA Noriyuki  Faculty of Engineering, Ibaragi University, Assistant professor, 工学部, 助教授 (70137256)
VASILEVSKAYA バレンチナ ヴィ  ロシア科学アカデミー, ネスメヤノフ有機素子化合物研究所, 上級研究員
VASILEVSKAYA バレンチナ ヴイ  ロシア科学アカデミー, ネスメヤノフ有機素子化合物研究所, 上級研究員
松沢 有希子  豊橋技術科学大学, 工学部, 助手 (10273335)
Project Period (FY) 1996 – 1997
Project Status Completed (Fiscal Year 1997)
Budget Amount *help
¥3,400,000 (Direct Cost: ¥3,400,000)
Fiscal Year 1997: ¥2,000,000 (Direct Cost: ¥2,000,000)
Fiscal Year 1996: ¥1,400,000 (Direct Cost: ¥1,400,000)
KeywordsSingle chain observation / Coil-globule transition / First order phase transition / Fluorescence microscopy / Monte Carlo simulation / Long DNA chain / Collapse of DNA / Folding transition / 単分子凝縮 / モンテカルロシミュレーション / 単分子備品
Research Abstract

As a whole, the international collaboration between Nagoya and Moscow has been performed successfully, including the development on basic concept in polymer physics and also in physical chemistry in mesoscopic system. Through the collaboration, the research group of Nagoya has demonstrated that individual single duplex DNA chains undergoes large discrete phase transition between elongated coil and compacted globule (coil-globule transition), based on the single chain observation by use of fluorescence microscopy, whereas ensemble of DNA has the characteristics of diffuse or continuous transition.From single chain observation, we found this first order phase transition is induced by various kinds of condensation agents such as synthetic polymer, cationic surfactant, low molecular multivalent cation, and alcohol. Based on these experimental findings, active collaboration between Nagoya and Moscow has been performed on the theoretical analysis of the phase transition in a single polymer chain, including Monte Carlo simulation and mean field theory. The essential aspects in the collapsed transition of long DNA chain has been reproduced with these theoretical analysis and calculations. It is to be noted that the existence of the morphological variation in the collapsed products can be interpreted well in these theories.

Report

(3 results)
  • 1997 Annual Research Report   Final Research Report Summary
  • 1996 Annual Research Report
  • Research Products

    (71 results)

All Other

All Publications (71 results)

  • [Publications] K.Yoshikawa: "Marked Discreteness on the coil-globule transition of single duplex-DNA" Ber.Bunsenges.Phys.Chem.100. 876-880 (1996)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] K.Yoshikawa: "Nucleation and Growth in Single DNA Molecules" J.Am.Chem.Soc.118. 929-930 (1996)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] H.Noguchi: "Self Organized Nanostructure Constructed with a Single Polymer Chain" Chem.Phys.Lett.261. 527-533 (1996)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] M.Ueda: "Phase Discrete Transition and Phase Segregation in a Single Double-Stranded DNA Molecule" Phys.Rev.Lett.77. 2133-2136 (1996)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] S.Kidoaki: "The Folded State of Long Duplex-DNA Chain Reflects Its Solution History" Biophys.J.71. 932-939 (1996)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] Y.Yoshikawa: "Folding and Aggregation of DNA Chains Induced by Complexation with Lipospermine:Formation of a Nuclesome-Like Structure and Network Assembly" FEBS Lett.396. 71-76 (1996)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] Y.Yoshikawa: "Daunomycin Unfolds Compactly Packed DNA" Biophys.Chem.61. 93-100 (1996)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] S.G.Starodoubtsev: "Intrachain Setregation in Single Giant DNA Molecules Induced by poly(2-vinylpyrrolidone)" J.Phys.Chem.100. 19702-19705 (1996)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] V.V.Vasilevskaya: "Structure of Collapsed Persistent Macromolecule:Toroids vs.Spherical Globule" Biopolymers. 41. 51-60 (1997)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] S.M.Melnikov: "Folding of Long DNA Chains in the presence of distearyldimethylammonium Bromide and Unfolding Induced by Neutral Liposomes" J.Chem.Soc.93. 283-288 (1997)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] S.M.Melnikov: "First-Order Phase Transition in Large Single Duplex DNA Induced by a Nonionic Surfactant" Biochem.Biophys.Res.Commun.230. 514-517 (1997)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] N.Emi: "Gene Transfer Mediated by Polyarginine Requires a Formation of Big Carrier-Complex of DNA Aggregate" Biochem.Biophys.Res.Commum.231. 421-424 (1997)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] E.Y.Kramarenko: "Collapse of Polyelectrolyte Macromolecules Revisited" Macromolecules. 30. 3383-3388 (1997)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] K.Yoshikawa: "Complexity in a Molecular String:Hierchical Structure as Is Exemplified in a DNA Chain" Complexity and Diversity,Springer. 81-90 (1997)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] S.M.Melnikov: "Cooperativity or phase transition?Unfolding transition of DNA cationic surfactant complex" J.Chem.Phys.107. 6917-6924 (1997)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] K.Yoshikawa: "Highly Effective Compaction of Long Duplex DNA Polyethylene Glycol with Pendant Amino Groups" J.Am.Chem.Soc.119. 6473-6477 (1997)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] H.Noguchi: "First-order phase transition in a stiff polymer chain" Chem.Phys.Lett.230. 184-188 (1997)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] M.Takahashi: "Discrete Coil-Globule Transition of Single duplex DNAs Induced by Polyaminese" J.Phys.Chem.B. 101. 9396-9401 (1997)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] Y.Yamasaki: "Higher Order Structure of DNA Controlled by the Redox State of Fe2+/Fe3+" J.Am.Chem.Soc.119. 10573-10578 (1997)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] M.Ueda: "Stretching of Long DNA under Alternating Current Electric Fields in a Concentrated Polymer Solution" Polym.J.29. 1040-1043 (1997)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] K.Yoshikawa: "Folding transition in single long duplex DNA cahin" Progr.Colloid.Polym.Sci.106. 204-208 (1997)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] S.M.Melnikov: "Cooperation between salt induced globule-coil transition in single duplex DNA complexed with cationic surfactant and sphere-rod transition of surfactant micelles" Progr.Colloid.Polym.Sci.106. 209-214 (1997)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] Y.Ichiba: "Single Chain Observation on Collapse Transition in Giant DNA Induced by Negativery-Charged Polymer" Biochem.Biophys.Res.Commum.242. 441-445 (1998)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] K.Yoshikawa: ""Marked Discreteness on the coil-globule transition of single duplex-DNA"" Ber.Bunsenges.Phys.Chem.Vol.100. 876-880 (1996)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] K.Yoshikawa: ""Nucleation and Growth in Single DNA Molecules"" J.Am.Chem.Soc.Vol.118. 929-930 (1996)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] H.Noguchi: ""Self Organized Nanostructure Constructed with a Single Polymer Chain"" Chem.Phys.Lett.Vol.261. 527-533 (1996)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] M.Ueda: ""Phase Discrete Transition and Phase Segregation in a Single Double-Stranded DNA Molecule"" Phys.Rev.Lett.Vol.77. 2133-2136 (1996)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] S.Kidoaki: ""The Folded State of Long Duplex-DNA Chain Reflects Its Solution History"" Biophys.J.Vol.71. 932-939 (1996)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] Y.Yoshikawa: ""Folding and Aggregation of DNA Chains Induced by Complexation with Lipospermine : Formation of a Nuclesome-Like Structure and Network Assembly"" FEBS Lett.Vol.396. 71-76 (1996)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] Y.Yoshikawa: ""Daunomycin Unfolds Compactly Packed DNA"" Biophys.Chem.Vol.61. 93-100 (1996)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] S.G.Starodoubtsev: ""Intrachain Setregation in Single Giant DNA Molecules Induced by Poly (2-vinylpyrrolidone) "" J.Phys.Chem.Vol.100. 19702-19705 (1996)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] V.V.Vasilevskaya: ""Structure of Collapsed Persistent Macromolecule : Toroids vs.Spherical Globule"" Biopolymers. Vol.41. 51-60 (1997)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] S.M.Mel'nikov: ""Folding of Long DNA Chains in the presence of distearyldimethylammonium Bromide and Unfolding Induced by Neutral Liposomes"" J.Chem.Soc., Faraday Trans.Vol.93. 283-288 (1997)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] S.M.Mel'nikov: ""First-Order Phase Transition in Large Single Duplex DNA Induced by a Nonionic Surfactant"" Biochem.Biophys.Res.Commun.Vol.230. 514-517 (1997)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] N.Emi: ""Gene Transfer Mediated by Polyarginine Requires a Formation of Big Carrier-Complex of DNA Aggregate"" Biochem.Biophys.Res.Commum.Vol.231. 421-424 (1997)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] E.Y.Kramarenko: ""Collapse of Polyelectrolyte Macromolecules Revisited"" Macromolecules. Vol.30. 3383-3388 (1997)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] K.Yoshikawa: ""Complexity in a Molecular String : Hierchical Structure as Is Exemplified in a DNA Chain"" Complexity and Diversity, Springer. 81-90 (1997)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] S.M.Mel'nikov: ""Cooperativity or phase transition? Unfolding transition of DNA cationic surfactant complex"" J.Chem.Phys.Vol.107. 6917-6924 (1997)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] K.Yoshikawa: ""Highly Effective Compaction of Long Duplex DNA Polyethylene Glycol with Pendant Amino Groups"" J.Am.Chem.Soc.Vol.119. 6473-6477 (1997)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] H.Noguchi: ""First-order phase transition in a stiff polymer chain"" Chem.Phys.Lett.Vol.278. 184-188 (1997)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] M.Takahashi: ""Discrete Coil-Globule Transition of Single duplex DNAs Induced by Polyamines"" J.Phys.Chem.B. Vol.101. 9396-9401 (1997)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] Y.Yamasaki: ""Higher Order Structure of DNA Controlled by the Redox State of Fe2+/Fe3+"" J.Am.Chem.Soc.Vol.119. 10573-10578 (1997)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] M.Ueda: ""Stretching of Long DNA under Alternating Current Electric Fields in a Concentrated Polymer Solution"" Polym.J.Vol.29. 1040-1043 (1997)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] K.Yoshikawa: ""Folding transition in single long duplex DNA cahin"" Progr.Colloid.Polym.Sci.Vol.106. 204-208 (1997)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] S.M.Mel'nikov: ""Cooperation between salt induced globule-coil transition in single duplex DNA complexed with cationic surfactant and sphere-rod transition of surfactant micelles"" Progr.Colloid.Polym.Sci.Vol.106. 209-214 (1997)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] S.G.Starodoubtsev: ""Conformational Transition of Large Duplex T4 DNA Embedded in Poly (acrylamide) Gel"" Langmuir. Vol.14. 214-217 (1998)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] Y.Ichiba: ""Single Chain Observation on Collapse Transition in Giant DNA Induced by Negativery-Charged Polymer"" Biochem.Biophys.Res.Commun.Vol.242. 441-445 (1998)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      1997 Final Research Report Summary
  • [Publications] Y.Yoshikawa: "Folding and Aggregation of DNA Chains Induced by Complexation with Lipospermine:Formation of a Nuclesome-Like Structure and Network Assembly" FEBS Lett.396. 71-76 (1996)

    • Related Report
      1997 Annual Research Report
  • [Publications] Y.Yoshikawa: "Daunomycin Unfolds Compactly Paked DNA" Biophys.Chem.61. 93-100 (1996)

    • Related Report
      1997 Annual Research Report
  • [Publications] S.G.Starodoubtsev: "Intrachain Setregation in Single Giant DNA Molecules Induced by Poly(2-vinylpyrrolidone)" J.Phys.Chem.100. 19702-19705 (1996)

    • Related Report
      1997 Annual Research Report
  • [Publications] V.V.Vasilevskaya: "Structure of Collapsed Persistent Macromolecule:Toroids vs.Spherical Globule" Biopolymers. 41. 51-60 (1997)

    • Related Report
      1997 Annual Research Report
  • [Publications] S.M.Mel'nikov: "Folding of Long DNA Chains in the presence of distearyldimethylammonium Bromide and Unfolding Induced by Neutral Liposomes" J.Chem.Soc.93. 283-288 (1997)

    • Related Report
      1997 Annual Research Report
  • [Publications] S.M.Mel'nikov: "First-Order Transition Large Single Duplex DNA Induced by a Nonionic Surfactant" Biochem.Biophys.Res.Commun.230. 514-517 (1997)

    • Related Report
      1997 Annual Research Report
  • [Publications] N.Emi: "Gene Transfer Mediated Polyarginine Requires a Formation of Big Carrier-Complex of DNA Aggregate" Biochem.Biophys.Res.Commum.231. 421-424 (1997)

    • Related Report
      1997 Annual Research Report
  • [Publications] E.Y.Kramarenko: "Collapse of Polyelectrolyte Macromolecules Revisited" Macromolecules. 30. 3383-3388 (1997)

    • Related Report
      1997 Annual Research Report
  • [Publications] K.Yoshikawa: "Complexity in a Molecular String:Hierchical Structure as Is Exemplified in a DNA Chain" Complexity and Diversity,Springer. 81-90 (1997)

    • Related Report
      1997 Annual Research Report
  • [Publications] S.M.Mel'nikov: "Cooperativity or phase transition? Unfolding transition of DNA cationic surfactant complex" J.Chem.Phys.107. 6917-6924 (1997)

    • Related Report
      1997 Annual Research Report
  • [Publications] K.Yoshikawa: "Highly Effective Compaction of Long Duplex DNA Polyethylene Glycol with Pendant Amino Groups" J.Am.Chem.Soc.119. 6473-6477 (1997)

    • Related Report
      1997 Annual Research Report
  • [Publications] H.Noguchi: "First-order phase transition in a stiff polymer chain" Chem.Phys.Lett.230. 184-188 (1997)

    • Related Report
      1997 Annual Research Report
  • [Publications] M.Takahashi: "discrete Coil-Globule Transition of Single Duplex DNAs Induced by Polyaminese" J.Phys.Chem.B. 101. 9396-9401 (1997)

    • Related Report
      1997 Annual Research Report
  • [Publications] Y.Yamasaki: "Higher Order Strucutre of DNA Controlled by the Redox State of Fe2+/Fe3+" J.Am.Chem.Soc.119. 10573-10578 (1997)

    • Related Report
      1997 Annual Research Report
  • [Publications] M.Ueda: "Stretching of Long DNA under Altemating Current Electric Fields in a Concentrated Polymer Solution" Polym.J.29. 1040-1043 (1997)

    • Related Report
      1997 Annual Research Report
  • [Publications] K.Yoshikawa: "Folding transition in single long duplex DNA cahin" Progr.Colloid.Polym.Sci.106. 204-208 (1997)

    • Related Report
      1997 Annual Research Report
  • [Publications] S.M.Mel'nikov: "Cooperation between salt induced globule-coil transition in single duplex DNA complexed with cationic surfactant and sphere-rod transition of surfactant micelles" Progr.Colloid.Polym.Sci.106. 209-214 (1997)

    • Related Report
      1997 Annual Research Report
  • [Publications] Y.Ichiba: "Single Chain Observation in Collapse Transition in Giant DNA Induced by Negativery-Charged Polymer" Biochem.Biophys.Res.Commum.242. 441-445 (1998)

    • Related Report
      1997 Annual Research Report
  • [Publications] 吉川研一他: "Marked Discreteness on the coil-globule transition of single duplex-DNA" Ber.Bunsenges.Phys.Chem.100. 876-880 (1996)

    • Related Report
      1996 Annual Research Report
  • [Publications] 吉川研一他: "Nucleation and Growth in Single DNA Molecules" J.Am.Chem.Soc.118. 929-930 (1996)

    • Related Report
      1996 Annual Research Report
  • [Publications] 吉川研一他: "Self Organized Nanostructure Constructed with a Single Polymer Chain" Chem.Phys.Lett.261. 527-533 (1996)

    • Related Report
      1996 Annual Research Report
  • [Publications] 吉川研一他: "Strucutre of Collapsed Persistent Macro-molecule:Toroids vs.Spherical Globule" Biopolymers. 41. 51-60 (1997)

    • Related Report
      1996 Annual Research Report
  • [Publications] 吉川研一他: "Phase Discrete Transition and Phase Segregation in a Single Double-Stranded DNA Molecule" Phys.Rev.Lett.77. 2133-2136 (1996)

    • Related Report
      1996 Annual Research Report
  • [Publications] 吉川研一他: "The Folded State of Long Duplex-DNA Chain Reflects Its Solution History" Biophys.J.71. 932-939 (1996)

    • Related Report
      1996 Annual Research Report

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Published: 1996-04-01   Modified: 2016-04-21  

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