4.7 Article

Dependence of DNA Persistence Length on Ionic Strength of Solutions with Monovalent and Divalent Salts: A Joint Theory-Experiment Study

Journal

MACROMOLECULES
Volume 48, Issue 11, Pages 3641-3652

Publisher

AMER CHEMICAL SOC
DOI: 10.1021/acs.macromol.5b00735

Keywords

-

Funding

  1. CNRS
  2. University of Toulouse 3
  3. [ANR-11-NANO-010 TPM-On-a-Chip]

Ask authors/readers for more resources

Using high-throughput tethered particle motion single-molecule experiments, the double-stranded DNA persistence length, L-p, is measured in solutions with Na+ and Mg2+ ions of various ionic strengths, I. Several theoretical equations for L-p(I) are fitted to the experimental data, but no decisive theory is found which fits all the L-p values for the two ion valencies. Properly extracted from the particle trajectory using simulations, L-p varies from 30 to 55 nm, and is comparable to previous experimental results. For the Na+-only case, L-p is an increasing concave function of I-1, well fitted by Mannings electrostatic stretching approach, but not by classical Odjik-Skolnick-Fixman theories with or without counterion condensation. With added Mg2+ ions, L-p shows a marked decrease at low I, interpreted as an ion-ion correlation effect, with an almost linear law in I-1, fitted by a proposed variational approach.

Authors

I am an author on this paper
Click your name to claim this paper and add it to your profile.

Reviews

Primary Rating

4.7
Not enough ratings

Secondary Ratings

Novelty
-
Significance
-
Scientific rigor
-
Rate this paper

Recommended

Article Genetics & Heredity

Nuclear Lamin B1 Interactions With Chromatin During the Circadian Cycle Are Uncoupled From Periodic Gene Expression

Annael Brunet, Frida Forsberg, Qiong Fan, Thomas Saether, Philippe Collas

FRONTIERS IN GENETICS (2019)

Article Biochemical Research Methods

An improved Xer-cise technology for the generation of multiple unmarked mutants in Mycobacteria

Yves-Marie Boudehen, Maximilian Wallat, Philippe Rousseau, Olivier Neyrolles, Claude Gutierrez

BIOTECHNIQUES (2020)

Article Chemistry, Physical

Domain formation in bicomponent vesicles induced by composition-curvature coupling

Julie Cornet, Nicolas Destainville, Manoel Manghi

JOURNAL OF CHEMICAL PHYSICS (2020)

Article Multidisciplinary Sciences

Post-replicative pairing of sister ter regions in Escherichia coli involves multiple activities of MatP

Estelle Crozat, Catherine Tardin, Maya Salhi, Philippe Rousseau, Armand Lablaine, Tommaso Bertoni, David Holcman, Bianca Sclavi, Pietro Cicuta, Francois Cornet

NATURE COMMUNICATIONS (2020)

Article Cell Biology

Physical constraints in polymer modeling of chromatin associations with the nuclear periphery at kilobase scale

Annael Brunet, Nicolas Destainville, Philippe Collas

Summary: The study utilized polymer simulations to investigate how physical parameters of chromatin affect its interactions with the nuclear lamina. It found that polymer stiffness has a greater impact on configurations at the lamina compared to stretching, leading to extended interactions and desorbed regions. The presence of an attraction potential results in persistent interaction and adsorption-desorption regimes, modulated by polymer stiffness and stretching.

NUCLEUS (2021)

Article Chemistry, Physical

Ionic Conductance of Carbon Nanotubes: Confronting Literature Data with Nanofluidic Theory

Manoel Manghi, John Palmeri, Francois Henn, Adrien Noury, Fabien Picaud, Guillaume Herlem, Vincent Jourdain

Summary: The field of ion transport through carbon nanotubes is characterized by varying reported values and uncertainties regarding channel and access resistances. By comparing experimental data with nanofluidic models, it is possible to determine the conditions under which different resistances predominate in CNTs. Most experimental conductance values can be explained by considering variations in slip length and surface charge density, but a few exceptionally high values cannot be accounted for even with extreme parameter values. Improving existing models and enhancing the statistical reliability of experimental data are important for the advancement of research in this field.

JOURNAL OF PHYSICAL CHEMISTRY C (2021)

Article Chemistry, Physical

Molecular dynamics investigations of ionic conductance at the nanoscale: Role of the water model and geometric parameters

Alia Mejri, Kamel Mazouzi, Guillaume Herlem, Fabien Picaud, Theo Hennequin, John Palmeri, Manoel Manghi

Summary: Ultra-efficient transport of water and ions at the nanoscale is studied through molecular dynamics simulations. Carbon nanotubes are used as nanofluidic devices, and the transport of solvated ions inside the nanotubes is found to be dependent on the geometric parameters of the carbon structure and the water models used.

JOURNAL OF MOLECULAR LIQUIDS (2022)

Article Biophysics

Protein overexpression can induce the elongation of cell membrane nanodomains

Julie Cornet, Pascal Preira, Laurence Salome, Frederic Daumas, Bernard Lagane, Nicolas Destainville, Manoel Manghi, Fabrice Dumas

Summary: In cell membranes, submicrometric nanodomains composed of proteins and lipids play important roles in specific functions. However, the detailed morphology of these nanodomains remains unknown. This study combines analytical calculations and Monte Carlo simulations to show that increasing protein concentration results in the elongation of membrane nanodomains. The findings suggest that protein abundance can modulate nanodomain shape and potentially impact their biological function.

BIOPHYSICAL JOURNAL (2023)

Meeting Abstract Biophysics

Monte Carlo and Molecular Dynamics Simulations to Explain Biomembrane Meso-Patterning by a Composition-Curvature Coupling Mechanism

Julie Cornet, Matthieu Chavent, Manoel Manghi, Nicolas Destainville

BIOPHYSICAL JOURNAL (2020)

Article Physics, Fluids & Plasmas

Dynamical control of denaturation bubble nucleation in supercoiled DNA minicircles

Francois Sicard, Nicolas Destainville, Philippe Rousseau, Catherine Tardin, Manoel Manghi

PHYSICAL REVIEW E (2020)

Meeting Abstract Biophysics

Dependence of DNA Persistence Length on Ionic Strength and Ion Type

S. Guilbaud, L. Salome, N. Destainville, M. Manghi, C. Tardin

EUROPEAN BIOPHYSICS JOURNAL WITH BIOPHYSICS LETTERS (2019)

Meeting Abstract Biophysics

Dependence of DNA Persistence Length on Ionic Strength and Ion Type

S. Guilbaud, L. Salome, N. Destainville, M. Manghi, C. Tardin

EUROPEAN BIOPHYSICS JOURNAL WITH BIOPHYSICS LETTERS (2019)

Meeting Abstract Biophysics

Monte Carlo and molecular dynamics simulations to explain biomembrane meso-patterning by a composition-curvature coupling mechanism

J. Cornet, M. Chavent, M. Manghi, N. Destainville

EUROPEAN BIOPHYSICS JOURNAL WITH BIOPHYSICS LETTERS (2019)

Article Physics, Fluids & Plasmas

Competition between Born solvation, dielectric exclusion, and Coulomb attraction in spherical nanopores

Theo Hennequin, Manoel Manghi, John Palmeri

Summary: The recent study on the dielectric constant of water confined in nanometric slit pores sheds light on the interplay between different physical mechanisms for ion partitioning in nanopores. The role of the Born contribution in inducing ionic liquid-vapor phase separation is explored, showing that the abrupt change in the dielectric contribution of the potential of mean force with Debye-Huckel screening parameters favors this transition. By establishing phase diagrams and monitoring osmotic pressure, the study reveals the competition between exclusion effects and electrostatic attraction in charged nanopores, providing insights for experiments and simulations on ionic transport through nanopores.

PHYSICAL REVIEW E (2021)

No Data Available