Literature DB >> 20638406

Condensed DNA: condensing the concepts.

Vladimir B Teif1, Klemen Bohinc.   

Abstract

DNA is stored in vivo in a highly compact, so-called condensed phase, where gene regulatory processes are governed by the intricate interplay between different states of DNA compaction. These systems often have surprising properties, which one would not predict from classical concepts of dilute solutions. The mechanistic details of DNA packing are essential for its functioning, as revealed by the recent developments coming from biochemistry, electrostatics, statistical mechanics, and molecular and cell biology. Different aspects of condensed DNA behavior are linked to each other, but the links are often hidden in the bulk of experimental and theoretical details. Here we try to condense some of these concepts and provide interconnections between the different fields. After a brief description of main experimental features of DNA condensation inside viruses, bacteria, eukaryotes and the test tube, main theoretical approaches for the description of these systems are presented. We end up with an extended discussion of the role of DNA condensation in the context of gene regulation and mention potential applications of DNA condensation in gene therapy and biotechnology.
Copyright © 2010 Elsevier Ltd. All rights reserved.

Mesh:

Year:  2010        PMID: 20638406     DOI: 10.1016/j.pbiomolbio.2010.07.002

Source DB:  PubMed          Journal:  Prog Biophys Mol Biol        ISSN: 0079-6107            Impact factor:   3.667


  47 in total

1.  A lattice model for transcription factor access to nucleosomal DNA.

Authors:  Vladimir B Teif; Ramona Ettig; Karsten Rippe
Journal:  Biophys J       Date:  2010-10-20       Impact factor: 4.033

2.  Lipoplexes of dicationic gemini surfactants with DNA: Structural features of DNA compaction and transfection efficiency.

Authors:  D A Faizullin; Yu F Zuev; L Ya Zakharova; A G Pokrovsky; V A Korobeinikov; T A Mukhametzyanov; A I Konovalov
Journal:  Dokl Biochem Biophys       Date:  2016-01-05       Impact factor: 0.788

3.  Structure-driven homology pairing of chromatin fibers: the role of electrostatics and protein-induced bridging.

Authors:  A G Cherstvy; V B Teif
Journal:  J Biol Phys       Date:  2013-01-17       Impact factor: 1.365

4.  Spermine Condenses DNA, but Not RNA Duplexes.

Authors:  Andrea M Katz; Igor S Tolokh; Suzette A Pabit; Nathan Baker; Alexey V Onufriev; Lois Pollack
Journal:  Biophys J       Date:  2017-01-10       Impact factor: 4.033

5.  Divalent Ion-Mediated DNA-DNA Interactions: A Comparative Study of Triplex and Duplex.

Authors:  Zhong-Liang Zhang; Yuan-Yan Wu; Kun Xi; Jian-Ping Sang; Zhi-Jie Tan
Journal:  Biophys J       Date:  2017-08-08       Impact factor: 4.033

6.  Helical structure determines different susceptibilities of dsDNA, dsRNA, and tsDNA to counterion-induced condensation.

Authors:  Alexei A Kornyshev; Sergey Leikin
Journal:  Biophys J       Date:  2013-05-07       Impact factor: 4.033

7.  AFM of self-assembled lambda DNA-histone networks.

Authors:  YuYing Liu; Martin Guthold; Matthew J Snyder; HongFeng Lu
Journal:  Colloids Surf B Biointerfaces       Date:  2015-06-19       Impact factor: 5.268

8.  Computing 3D Chromatin Configurations from Contact Probability Maps by Inverse Brownian Dynamics.

Authors:  Kiran Kumari; Burkhard Duenweg; Ranjith Padinhateeri; J Ravi Prakash
Journal:  Biophys J       Date:  2020-02-29       Impact factor: 4.033

9.  Amino Acid Sequence of Oligopeptide Causes Marked Difference in DNA Compaction and Transcription.

Authors:  Anatoly Zinchenko; Hiroyuki Hiramatsu; Hideaki Yamaguchi; Koji Kubo; Shizuaki Murata; Toshio Kanbe; Norio Hazemoto; Kenichi Yoshikawa; Tatsuo Akitaya
Journal:  Biophys J       Date:  2019-04-19       Impact factor: 4.033

10.  A repetitive DNA-directed program of chromosome packaging during mitosis.

Authors:  Shao-Jun Tang
Journal:  J Genet Genomics       Date:  2016-06-29       Impact factor: 4.275

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