Cargando…

A benchmark data set for the mechanical properties of double-stranded DNA and RNA under torsional constraint

Nucleic acids are central to the storage and transmission of genetic information and play essential roles in many cellular processes. Quantitative understanding and modeling of their functions and properties requires quantitative experimental characterization. We use magnetic tweezers (MT) to apply...

Descripción completa

Detalles Bibliográficos
Autores principales: Vanderlinden, Willem, Kolbeck, Pauline J., Kriegel, Franziska, Walker, Philipp U., Lipfert, Jan
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Elsevier 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7154992/
https://www.ncbi.nlm.nih.gov/pubmed/32309523
http://dx.doi.org/10.1016/j.dib.2020.105404
_version_ 1783521939369754624
author Vanderlinden, Willem
Kolbeck, Pauline J.
Kriegel, Franziska
Walker, Philipp U.
Lipfert, Jan
author_facet Vanderlinden, Willem
Kolbeck, Pauline J.
Kriegel, Franziska
Walker, Philipp U.
Lipfert, Jan
author_sort Vanderlinden, Willem
collection PubMed
description Nucleic acids are central to the storage and transmission of genetic information and play essential roles in many cellular processes. Quantitative understanding and modeling of their functions and properties requires quantitative experimental characterization. We use magnetic tweezers (MT) to apply precisely calibrated stretching forces and linking number changes to DNA and RNA molecules tethered between a surface and superparamagnetic beads. Magnetic torque tweezers (MTT) allow to control the linking number of double-stranded DNA or RNA tethers, while directly measuring molecular torque by monitoring changes in the equilibrium rotation angle upon over- or underwinding of the helical molecules. Here, we provide a comprehensive data set of double-stranded DNA and RNA under controlled stretching as a function of the linking number. We present data for extension and torque as a function of linking number in equilibrium. We report data for the critical torque of buckling and of the torsional stiffness of DNA and RNA as a function of applied force. Finally, we provide dynamic data for the hopping behavior at the DNA buckling point.
format Online
Article
Text
id pubmed-7154992
institution National Center for Biotechnology Information
language English
publishDate 2020
publisher Elsevier
record_format MEDLINE/PubMed
spelling pubmed-71549922020-04-17 A benchmark data set for the mechanical properties of double-stranded DNA and RNA under torsional constraint Vanderlinden, Willem Kolbeck, Pauline J. Kriegel, Franziska Walker, Philipp U. Lipfert, Jan Data Brief Biochemistry, Genetics and Molecular Biology Nucleic acids are central to the storage and transmission of genetic information and play essential roles in many cellular processes. Quantitative understanding and modeling of their functions and properties requires quantitative experimental characterization. We use magnetic tweezers (MT) to apply precisely calibrated stretching forces and linking number changes to DNA and RNA molecules tethered between a surface and superparamagnetic beads. Magnetic torque tweezers (MTT) allow to control the linking number of double-stranded DNA or RNA tethers, while directly measuring molecular torque by monitoring changes in the equilibrium rotation angle upon over- or underwinding of the helical molecules. Here, we provide a comprehensive data set of double-stranded DNA and RNA under controlled stretching as a function of the linking number. We present data for extension and torque as a function of linking number in equilibrium. We report data for the critical torque of buckling and of the torsional stiffness of DNA and RNA as a function of applied force. Finally, we provide dynamic data for the hopping behavior at the DNA buckling point. Elsevier 2020-03-12 /pmc/articles/PMC7154992/ /pubmed/32309523 http://dx.doi.org/10.1016/j.dib.2020.105404 Text en © 2020 The Author(s) http://creativecommons.org/licenses/by/4.0/ This is an open access article under the CC BY license (http://creativecommons.org/licenses/by/4.0/).
spellingShingle Biochemistry, Genetics and Molecular Biology
Vanderlinden, Willem
Kolbeck, Pauline J.
Kriegel, Franziska
Walker, Philipp U.
Lipfert, Jan
A benchmark data set for the mechanical properties of double-stranded DNA and RNA under torsional constraint
title A benchmark data set for the mechanical properties of double-stranded DNA and RNA under torsional constraint
title_full A benchmark data set for the mechanical properties of double-stranded DNA and RNA under torsional constraint
title_fullStr A benchmark data set for the mechanical properties of double-stranded DNA and RNA under torsional constraint
title_full_unstemmed A benchmark data set for the mechanical properties of double-stranded DNA and RNA under torsional constraint
title_short A benchmark data set for the mechanical properties of double-stranded DNA and RNA under torsional constraint
title_sort benchmark data set for the mechanical properties of double-stranded dna and rna under torsional constraint
topic Biochemistry, Genetics and Molecular Biology
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7154992/
https://www.ncbi.nlm.nih.gov/pubmed/32309523
http://dx.doi.org/10.1016/j.dib.2020.105404
work_keys_str_mv AT vanderlindenwillem abenchmarkdatasetforthemechanicalpropertiesofdoublestrandeddnaandrnaundertorsionalconstraint
AT kolbeckpaulinej abenchmarkdatasetforthemechanicalpropertiesofdoublestrandeddnaandrnaundertorsionalconstraint
AT kriegelfranziska abenchmarkdatasetforthemechanicalpropertiesofdoublestrandeddnaandrnaundertorsionalconstraint
AT walkerphilippu abenchmarkdatasetforthemechanicalpropertiesofdoublestrandeddnaandrnaundertorsionalconstraint
AT lipfertjan abenchmarkdatasetforthemechanicalpropertiesofdoublestrandeddnaandrnaundertorsionalconstraint
AT vanderlindenwillem benchmarkdatasetforthemechanicalpropertiesofdoublestrandeddnaandrnaundertorsionalconstraint
AT kolbeckpaulinej benchmarkdatasetforthemechanicalpropertiesofdoublestrandeddnaandrnaundertorsionalconstraint
AT kriegelfranziska benchmarkdatasetforthemechanicalpropertiesofdoublestrandeddnaandrnaundertorsionalconstraint
AT walkerphilippu benchmarkdatasetforthemechanicalpropertiesofdoublestrandeddnaandrnaundertorsionalconstraint
AT lipfertjan benchmarkdatasetforthemechanicalpropertiesofdoublestrandeddnaandrnaundertorsionalconstraint