Precision and accuracy of single-molecule FRET measurements-a multi-laboratory benchmark study

Research output: Contribution to journalResearch articleContributedpeer-review

Contributors

  • Bjoern Hellenkamp - , Columbia University (Author)
  • Sonja Schmid - , Delft University of Technology (Author)
  • Olga Doroshenko - , Heinrich Heine University Düsseldorf (Author)
  • Oleg Opanasyuk - , Heinrich Heine University Düsseldorf (Author)
  • Ralf Kuehnemuth - , Heinrich Heine University Düsseldorf (Author)
  • Soheila Rezaei Adariani - , Clemson University (Author)
  • Benjamin Ambrose - , University of Sheffield (Author)
  • Mikayel Aznauryan - , Aarhus University (Author)
  • Anders Barth - , Ludwig Maximilian University of Munich (Author)
  • Victoria Birkedal - , Aarhus University (Author)
  • Mark E. Bowen - , Stony Brook University (Author)
  • Hongtao Chen - , University of California at Irvine (Author)
  • Thorben Cordes - , Ludwig Maximilian University of Munich (Author)
  • Tobias Eilert - , Ulm University (Author)
  • Carel Fijen - , Wageningen University & Research (WUR) (Author)
  • Christian Gebhardt - , Ludwig Maximilian University of Munich (Author)
  • Markus Goetz - , University of Freiburg (Author)
  • Giorgos Gouridis - , Ludwig Maximilian University of Munich (Author)
  • Enrico Gratton - , University of California at Irvine (Author)
  • Taekjip Ha - , Johns Hopkins University (Author)
  • Pengyu Hao - , North Carolina State University (Author)
  • Christian A. Hanke - , Heinrich Heine University Düsseldorf (Author)
  • Andreas Hartmann - , Chair of Molecular Biophysics, Nanoanalytical methods (Junior Research Group) (Author)
  • Jelle Hendrix - , Hasselt University (Author)
  • Lasse L. Hildebrandt - , Aarhus University (Author)
  • Verena Hirschfeld - , University of Lübeck (Author)
  • Johannes Hohlbein - , Wageningen University & Research (WUR) (Author)
  • Boyang Hua - , Johns Hopkins University (Author)
  • Christian G. Huebner - , University of Lübeck (Author)
  • Eleni Kallis - , Ulm University (Author)
  • Achillefs N. Kapanidis - , Oxford Brookes University (OBU) (Author)
  • Jae-Yeol Kim - , Seoul National University (Author)
  • Georg Krainer - , Chair of Molecular Biophysics, Nanoanalytical methods (Junior Research Group), TUK, Mol Biophys (Author)
  • Don C. Lamb - , Ludwig Maximilian University of Munich (Author)
  • Nam Ki Lee - , Seoul National University (Author)
  • Edward A. Lemke - , European Molecular Biology Laboratory (EMBL) Heidelberg (Author)
  • Brie Levesque - , Stony Brook University (Author)
  • Marcia Levitus - , Arizona State University (Author)
  • James J. McCann - , Stony Brook University (Author)
  • Nikolaus Naredi-Rainer - , Ludwig Maximilian University of Munich (Author)
  • Daniel Nettels - , University of Zurich (Author)
  • Thuy Ngo - , Johns Hopkins University (Author)
  • Ruoyi Qiu - , North Carolina State University (Author)
  • Nicole C. Robb - , Oxford Brookes University (OBU) (Author)
  • Carlheinz Roecker - , Ulm University (Author)
  • Hugo Sanabria - , Clemson University (Author)
  • Michael Schlierf - , Chair of Molecular Biophysics, Nanoanalytical methods (Junior Research Group) (Author)
  • Tim Schroeder - , Ludwig Maximilian University of Munich (Author)
  • Benjamin Schuler - , University of Zurich (Author)
  • Henning Seidel - , University of Lübeck (Author)
  • Lisa Streit - , Ulm University (Author)
  • Johann Thurn - , University of Freiburg (Author)
  • Philip Tinnefeld - , Technical University of Braunschweig (Author)
  • Swati Tyagi - , European Molecular Biology Laboratory (EMBL) Heidelberg (Author)
  • Niels Vandenberk - , KU Leuven (Author)
  • Andres Manuel Vera - , Ludwig Maximilian University of Munich (Author)
  • Keith R. Weninger - , North Carolina State University (Author)
  • Bettina Wunsch - , Technical University of Braunschweig (Author)
  • Inna S. Yanez-Orozco - , Clemson University (Author)
  • Jens Michaelis - , Ulm University (Author)
  • Claus A. M. Seidel - , Heinrich Heine University Düsseldorf (Author)
  • Timothy D. Craggs - , Oxford Brookes University (OBU) (Author)
  • Thorsten Hugel - , University of Freiburg (Author)

Abstract

Single-molecule Forster resonance energy transfer (smFRET) is increasingly being used to determine distances, structures, and dynamics of biomolecules in vitro and in vivo. However, generalized protocols and FRET standards to ensure the reproducibility and accuracy of measurements of FRET efficiencies are currently lacking. Here we report the results of a comparative blind study in which 20 labs determined the FRET efficiencies (E) of several dye-labeled DNA duplexes. Using a unified, straightforward method, we obtained FRET efficiencies with s.d. between +/- 0.02 and +/- 0.05. We suggest experimental and computational procedures for converting FRET efficiencies into accurate distances, and discuss potential uncertainties in the experiment and the modeling. Our quantitative assessment of the reproducibility of intensity-based smFRET measurements and a unified correction procedure represents an important step toward the validation of distance networks, with the ultimate aim of achieving reliable structural models of biomolecular systems by smFRET-based hybrid methods.

Details

Original languageEnglish
Pages (from-to)669-+
Number of pages12
JournalNature methods
Volume15
Issue number9
Publication statusPublished - Sept 2018
Peer-reviewedYes

External IDs

Scopus 85052699968
ORCID /0000-0002-6209-2364/work/142237614
ORCID /0000-0002-2213-2763/work/142239769

Keywords

Keywords

  • RESONANCE ENERGY-TRANSFER, ALTERNATING-LASER EXCITATION, STRUCTURAL INFORMATION, PHOTON DISTRIBUTION, REFRACTIVE-INDEX, DNA, DYNAMICS, DEPENDENCE, DISTANCES, SYSTEMS