2024
I Ceppi, M R Dello Stritto, M Mütze, S Braunshier, V Mengoli, G Reginato, H M Phúc Võ, S Jimeno, A Acharya, M Roy, A Sanchez, S Halder, S M Howard, R Guérois, P Huertas, S M Noordermeer, R Seidel, P Cejka.
Mechanism of BRCA1–BARD1 function in DNA end resection and DNA protection.
Nature 634, 492-500 (2024) pdf
A Acharya, H Bret, J W Huang, M Mütze, M Göse, V M Kissling, R Seidel, A Ciccia, R Guérois, P Cejka.
Mechanism of DNA unwinding byMCM8-9 in complex with HROB.
Nat. Commun. 15:3584 (2024) pdf
U Kemper, N Weizenmann, C. Kielar, A Erbe, R Seidel.
Heavy Metal Stabilization of DNA Origami Nanostructures.
Nano Lett. 24, 2429-2436 (2024) pdf
P Irmisch, I Mogila, B Samatanga, G Tamulaitis, R Seidel.
Retention of the RNA ends provides the molecular memory for maintaining the activation of the Csm complex.
Nucleic Acids Res. 52, 3896-3910 (2024) pdf
G Bigelyte, B Duchovska, R Zedaveinyte, G Sasnauskas, T Sinkunas, I Dalgediene, G Tamulaitiene, A Silanskas, D Kazlauskas, L Valancauskas, J Madariaga-Marcos, R Seidel, V Siksnys, T Karvelis.
Innate programmable DNA binding by CRISPR-Cas12m effectors enable efficient base editing.
Nucleic Acids Res. 52, 3234-32 (2024) pdf
M Göse, E E Magill, A Hughes-Games, S J Shaw, F M Diffin, T Rawson, Z Nagy, R Seidel, M D Szczelkun.
Short-range translocation by a restriction enzyme motor triggers diffusion along DNA.
Nat. Chem. Biol. 20, 689-698(2024) pdf
2023
R Du, Q Teng, S Xu, M Jiang, P Irmisch, Z-G Wang.
Self-Assembly of Designed Peptides with DNA to Accelerate the DNA Strand Displacement Process for Dynamic Regulation of DNAzymes.
ACS Nano 17, 24753-24762 (2023) pdf
J Madariaga-Marcos, P Aldag, D J Kauert, R Seidel.
Correlated Single-Molecule Magnetic Tweezers and Fluorescence Measurements of DNA-Enzyme Interactions.
In: Heller, I., Dulin, D., Peterman, E.J. (eds) Single Molecule Analysis .
Meth Mol Biol. 20, 421-448 (2023) pdf
J Bucci, P Irmisch, E Del Grosso, R Seidel, F Ricci.
TimedPulsesin DNAStrandDisplacementReactions.
J. Am. Chem. Soc. 145, 20968-20974 (2023) pdf
D J Kauert, J Madariaga-Marcos, M Rutkauskas, A Wulfken, I Songailiene, T Sinkunas, V Siksnys, R Seidel.
The energy landscape for R-loop formation by the CRISPR–Cas Cascade complex.
Nat. Struct. Mol. Biol. 30, 1040-1047 (2023) pdf
P Aldag, M Rutkauskas, J Madariaga-Marcos, I Songailiene, T Sinkunas, F Kemmerich, D J Kauert, V Siksnys, R Seidel.
Dynamic interplay between target search and recognition for a Type I CRISPR-Cas system.
Nat. Commun. 14, 3654 ( 2023) pdf
U Kemper, J Ye, D Poppitz, R Gläser, R Seidel.
DNA Mold-Based Fabrication of Palladium Nanostructures.
Small 2206438 (2023) pdf
2022
M Rutkauskas, I Songailiene, P Irmisch, F E Kemmerich, T Sinkunas, V Siksnys, R Seidel.
A quantitative model for the dynamics of target recognition and off-target rejection by the CRISPR-Cas Cascade complex.
Nat. Commun. 13, 7460 (2022) pdf
M Scherf, F Scheffler, C Maffeo, U Kemper, J Ye, A Aksimentiev, R Seidel, U. Reibetanz.
Trapping of protein cargo molecules inside DNA origami nanocages.
Nanoscale 14, 18041-18050 (2022) pdf
J Bucci, P Irmisch, E Del Grosso, R Seidel, F Ricci.
Orthogonal Enzyme-Driven Timers for DNA Strand Displacement Reactions.
J. Am. Chem. Soc. 144, 19791−19798 (2022) pdf
V M Kissling, G Reginato, E Bianco, K Kasaciunaite, J Tilma, G Cereghetti, N Schindler, S S Lee, R Guérois, B Luke, R Seidel, P Cejka, M Peter.
Mre11-Rad50 oligomerization promotes DNA double-strand break repair.
Nat. Commun. 13, 2374 (2022) pdf
E Del Grosso, P Irmisch, S Gentile, L Prins, R Seidel, F Ricci.
Dissipative Control over the Toehold-Mediated DNA Strand Displacement Reaction.
Angew. Chem. Int. Ed. e202201929 (2022) pdf
C Balbo Pogliano, I Ceppi, S Giovannini, V Petroulaki, N Palmer, F Uliana, M Gatti, K Kasaciunaite, R Freire, R Seidel, M Altmeyer, P Cejka, J Matos.
The CDK1-TOPBP1-PLK1 axis regulates the Bloom’s syndrome helicase BLM to suppress crossover recombination in somatic cells.
Sci. Adv. 8, eabk0221 (2022) pdf
2021
P Aldag, F Welzel, L Jakob, A Schmidbauer, M Rutkauskas, F Fettes, D Grohmann, R Seidel.
Probing the stability of the SpCas9–DNA complex after cleavage.
Nucleic Acids Res. 49, 12411-12421 (2021) pdf
A Acharya, K Kasaciunaite, M Göse, V Kissling, R Guérois, R Seidel, P Cejka.
Distinct RPA domains promote recruitment and the helicase-nuclease activities of Dna2.
Nat. Commun. 12, 6521 (2021) pdf
G Bigelyte, J K Young, T Karvelis, K Budre, R Zedaveinyte, V Djukanovic, E V Ginkel, S Paulraj, S Gasior, S Jones, L Feigenbutz, G St. Clair, P Barone, J Bohn, A Acharya, G Zastrow-Hayes, S Henkel-Heinecke, A Silanskas, R Seidel, V Siksnys.
Miniature type V-F CRISPR-Cas nucleases enable targeted DNA modification in cells.
Nat. Commun. 12, 6191 (2021) pdf
N Weizenmann, G Scheidgen-Kleyboldt, J Ye, C Krause, D Kauert, S Helmi, C Rouillon, R Seidel.
Chemical ligation of an entire DNA Origami nanostructure.
Nanoscale 13, 17556-17565 (2021) pdf
J Ye, J Teske, U Kemper, R Seidel.
Sequential Pull‐Down Purification of DNA Origami Superstructures.
Small 17, 2007218 (2021) pdf
J Ye, O Aftenieva, T Bayrak, A Jain, T König, A Erbe, R Seidel.
Complex Metal Nanostructures with Programmable Shapes from Simple DNA Building Blocks.
Adv. Mater. 33, 2100381 (2021) pdf
2020
I Ceppi, S M Howard, K Kasaciunaite, C Pinto, R Anand, R Seidel, P Cejka.
CtIP promotes the motor activity of DNA2 to accelerate long-range DNA end resection.
Proc. Natl. Acad. Sci. U.S.A. 117, 8859-8869 (2020) pdf
P Irmisch, T E Ouldridge, R Seidel.
Modelling DNA-strand displacement reactions in the presence of base-pair mismatches.
J. Am. Chem. Soc. 142, 11451-11463 (2020) pdf
R Grigaitis, L Ranjha, P Wild, K Kasaciunaite, I Ceppi, V Kissling, A Henggeler, A Susperregui, M Peter, R Seidel, P Cejka, J Matos.
Phosphorylation of the RecQ Helicase Sgs1/BLM Controls Its DNA Unwinding Activity during Meiosis and Mitosis.
Developmental Cell 53, 1-18 (2020) pdf
J Ye, R Weichelt, U Kemper, V Gupta, T König, A Eychmüller, R Seidel.
Casting of Gold Nanoparticles with High Aspect Ratios inside DNA Molds.
Small 16, 2003662 (2020) pdf
2019
F Scheffler, M Brueckner, J Ye, R Seidel, U Reibetanz.
A Hybrid Carrier System Based on Origami Nanostructures and Layer-by-Layer Microparticles.
Adv. Funct. Mat. 29, 1808116 (2019) pdf
J Dikic, R Seidel.
Anticooperative Binding Governs the Mechanics of Ethidium-Complexed DNA.
Biophys. J. 116, 1394-1405 (2019) pdf
R Weichelt, J Ye, U Banin, A Eychmüller, R Seidel.
DNA-mediated Self-assembly and Metallization of Semiconductor Nanorods for the Fabrication of Nanoelectronic Interfaces.
Chemistry 25, 9012-9016 (2019) pdf
J Ye, S Helmi, J Teske, R Seidel.
Fabrication of Metal Nanostructures with Programmable Length and Patterns Using a Modular DNA Platform.
Nano Lett. 19, 2707-2714 (2019) pdf
K Kasaciunaite, F Fettes, M Levikova, P Daldrop, R Anand, P Cejka, R Seidel.
Competing interaction partners modulate the activity of Sgs1 helicase during DNA end resection.
EMBO J. 38, e101516 (2019) pdf
I Songailiene, M Rutkauskas, T Sinkunas, E Manakova, S Wittig, C Schmidt, V Siksnys, R Seidel.
Decision-Making in Cascade Complexes Harboring crRNAs of Altered Length.
Cell Reports 28, 3157-3166 (2019) pdf
R Bosire, P Nánási Jr., L Imre, B Dienes, Á Szöőr, A Mázló, A Kovács, R Seidel, G Vámosi, G Szab.
Intercalation of small molecules into DNA in chromatin is primarily controlled by superhelical constraint.
PLoS ONE 14, e0224936 (2019) pdf
2018
A Krivoy, M Rutkauskas, K Kuznedelov, O Musharove, C Rouillon, K Severinov, R Seidel.
Primed CRISPR Adaptation in Escherichia Coli Cells Does Not Depend on Conformational Changes in the Cascade Effector Complex Detected in Vitro.
Nucleic Acids Res. 46, 4087-4098 (2018) pdf
T Bayrak, S Helmi, J Ye, D J Kauert, J Kelling, T Schönherr, R Weichelt, A Erbe, R Seidel.
DNA mold templated assembly of conductive gold nanowires.
Nano Lett. 18, 2116-2123 (2018) pdf
2017
G Kostiuk, J Dikic, F W Schwarz, G Sasnauskas, R Seidel, V Siksnys.
The dynamics of the monomeric restriction endonuclease BcnI during its interaction with DNA.
Nucleic Acids Res. 45, 5968-5979 (2017) pdf
M Rutkauskas, A Krivoy, M D Szczelkun, C Rouillon, R Seidel.
Single-Molecule Insight Into Target Recognition by CRISPR-Cas Complexes.
Methods Enzymol. 582, 239-273 (2017) pdf
2016
C Pinto, K Kasaciunaite, R Seidel, P Cejka.
Human DNA2 possesses a cryptic DNA unwinding activity that functionally integrates with BLM or WRN helicases.
eLife 5, e18574 (2016) pdf
F E Kemmerich, K Kasaciunaite, R Seidel.
Modular magnetic tweezers for single-molecule characterizations of helicases.
Methods. 108, 4–13 (2016) pdf
S Wierer, P Daldrop, M Ud Din Ahmad, W Boos, M Drescher, W Welte, R Seidel.
TrmBL2 from Pyrococcus furiosus Interacts Both with Double-Stranded and Single-Stranded DNA.
PLoS One 23, e0156098 (2016) pdf
F E Kemmerich, P Daldrop, C Pinto, M Levikova, P Cejka, R Seidel.
Force regulated dynamics of RPA on a DNA fork.
Nucleic Acids Res. 44, 5837-5848 pdf
F E Kemmerich, M Swoboda, D J Kauert, M S Grieb, S Hahn, F W Schwarz, R Seidel, M Schlierf.
Simultaneous single-molecule force and fluorescence sampling of DNA nanostructure conformations using magnetic tweezers.
Nano Lett. 16, 381-386 (2016) pdf
2015
P Daldrop, H Brutzer, A Huhle, D J Kauert, R Seidel.
Extending the range for force calibration in magnetic tweezers.
Biophys J. 108, 2550-2561 (2015) pdf
M Rutkauskas, T Sinkunas, I Songailiene, M S Tikhomirova, V Siksnys, R Seidel.
Directional R-Loop Formation by the CRISPR-Cas Surveillance Complex Cascade Provides Efficient Off-Target Site Rejection.
Cell Rep. 10, 1534-1543 (2015) pdf
A Czogalla, D J Kauert, H G Franquelim, V Uzunova, Y Zhang, R Seidel, P Schwille.
Amphipathic DNA Origami Nanoparticles to Scaffold and Deform Lipid Membrane Vesicles.
Angew. Chem. Intl. Ed. 54, 6501-6505 (2015) pdf
A Huhle, D Klaue, H Brutzer, P Daldrop, S Joo, O Otto, U F Keyser, R Seidel.
Camera-based three-dimensional real-time particle tracking at kHz rates and Ångström accuracy.
Nat. Commun. 6, 5885 (2015) pdf
A Czogalla, D J Kauert, R Seidel, P Schwille, E P Petrov.
DNA origami nanoneedles on freestanding lipid membranes as a tool to observe isotropic-nematic transition in two dimensions.
Nano Lett. 15, 649-655 (2015) pdf
H Brutzer, E Sperling, K Günther, J Dikic, F Schwarz, D Klaue, F Cichos, M Mertig, R Seidel.
DNA under confinement and the use of DNA as confinement
Diffusion fundamentals. 23, 1-16 (2015) pdf
2014
S Helmi, C Ziegler, D J Kauert, R Seidel.
Shape-controlled synthesis of gold nanostructures using DNA origami molds.
Nano Lett. 14, 6693-6698 (2014) pdf
M D Szczelkun, M S Tikhomirova, T Sinkunas, G Gasiunas, T Karvelis, P Pschera, V Siksnys, R Seidel.
Direct observation of R-loop formation by single RNA-guided Cas9 and Cascade effector complexes.
Proc. Natl. Acad. Sci. U.S.A. 111, 9798-9803 (2014) pdf
2013
R Seidel, M D Szczelkun.
Switching roles for a helicase.
Cell Cycle 12, 3125-3126 (2013) pdf
D Klaue, D Kobbe, F Kemmerich, A Kozikowska, H Puchta, R Seidel.
Fork sensing and strand switching control antagonistic activities of RecQ helicases.
Nat. Commun. 4, 2024 (2013) pdf
F W Schwarz, J Toth, K van Aelst, G Cui, S Clausing, M D Szczelkun, R Seidel.
The helicase-like domains of Type III restriction enzymes trigger long-range diffusion along DNA.
Science 340, 353-356 (2013) pdf
M Levikova, D Klaue, R Seidel, P Cejka.
The nuclease activity of Saccharomyces cerevisiae Dna2 inhibits its potent DNA helicase activity.
Proc. Natl. Acad. Sci. 110, E1992–E200 (2013) pdf
A Czogalla, E P Petrov, D J Kauert, V Uzunova, Y Zhang, R Seidel, P Schwille.
Switchable domain partitioning and diffusion of DNA origami rods on membranes.
Faraday Discuss. 161, 31-43 (2013) pdf
2012
R Schöpflin, H Brutzer, O Müller, R Seidel*, G Wedemann*.
Probing the elasticity of DNA on short length scales by modeling supercoiling under tension.
Biophys J. 103, 323-330 (2012) *corresponding author pdf
H Brutzer, F W Schwarz, R Seidel.
Scanning evanescent fields using a point-like light source and a nanomechanical DNA gear.
Nano Lett. 12, 473-478 (2012) pdf
N Luzzietti, S Knappe, I Richter, R Seidel.
Nicking enzyme-based internal labelling of DNA at multiple loci.
Nat. Protoc. 7, 643-653 (2012) pdf
2011
D J Kauert, T Kurth, T Liedl, R Seidel.
Direct mechanical measurements reveal the material properties of 3D DNA-origami.
Nano Lett. 11, 5558-5563 (2011) pdf
F W Schwarz, K van Aelst, J Toth, R Seidel, M D Szczelkun.
DNA cleavage site selection by Type III restriction enzymes provides evidence for head-on protein collisions following 1D bidirectional motion.
Nucleic Acids Res. 39, 8042-8051 (2011) pdf
N Luzzietti, H Brutzer, D Klaue, F W Schwarz, S Clausing, W Staroske, R Seidel.
Efficient preparation of internally modified single-molecule constructs using nicking enzymes.
Nucleic Acids Res. 39, e15 (2011) pdf
O Otto, J L Gornall, G Stober, F Czerwinski, R Seidel, U F Keyser.
High-speed video-based tracking of optically trapped colloids.
J. Opt. 13, 044011 (2011) pdf
2010
H Brutzer, N Luzzietti, D Klaue, R Seidel.
Energetics at the DNA supercoiling transition.
Biophys J. 98, 1267-1276 (2010) pdf
K Günther, M Mertig, R Seidel.
Mechanical and structural properties of YOYO-1 complexed DNA.
Nucleic Acids Res. 38, 6526-6532 (2010) pdf
M D Szczelkun, P Friedhoff, R Seidel.
Maintaining a sense of direction during long-range communication on DNA.
Biochem. Soc. Trans. 38, 404-409 (2010) pdf
K van Aelst, J Tóth, S P Ramanathan, F W Schwarz, R Seidel, M D Szczelkun.
Type III restriction enzymes cleave DNA by long-range interaction between sites in both head-to-head and tail-to-tail inverted repeat.
Proc. Natl. Acad. Sci. U.S.A. 107, 9123-9128 (2010) pdf
C Maffeo, R Schöpflin, H Brutzer, R Stehr, A Aksimentiev, G Wedemann, R Seidel.
DNA-DNA interactions in tight supercoils are described by a small effective charge density.
Phys. Rev. Lett. 105, 158101 (2010) pdf
O Otto, F Czerwinski, J L Gornall, G Stober, L B Oddershede, R Seidel, U F Keyser.
Real-time particle tracking at 10,000 fps using optical fiber illumination.
Opt. Express 18, 22722-22733 (2010) pdf
2009
A Erler, S Wegmann, C Elie-Caille, C R Bradshaw, M Maresca, R Seidel, et al.
Conformational Adaptability of Redβ during DNA Annealing and Implications for Its Structural Relationship with Rad52.
J. Mol. Biol. 391, 586-598 (2009) pdf
D Klaue, R Seidel.
Torsional stiffness of single superparamagnetic microspheres in an external magnetic field.
Phys. Rev. Lett. 102, 028302 (2009) pdf
S P Ramanathan, K van Aelst, A Sears, L J Peakman, F M Diffin, M D Szczelkun, R Seidel.
Type III restriction enzymes communicate in 1D without looping between their target sites.
Proc. Natl. Acad. Sci. U.S.A. 106, 1748-1753 (2009) pdf
2008
R Seidel, J G P Bloom, C Dekker, M D Szczelkun.
Motor step size and ATP coupling efficiency of the dsDNA translocase EcoR124I.
EMBO J. 27, 1388-1398 (2008) pdf
E Sisáková, M Weiserová, C Dekker, R Seidel, M D Szczelkun.
The interrelationship of helicase and nuclease domains during DNA translocation by the molecular motor EcoR124I.
J. Mol. Biol. 384, 1273-1286 (2008) pdf
2007
T van der Heijden, R Seidel, M Modesti, R Kanaar, C Wyman, C Dekker.
Real-time assembly and disassembly of human RAD51 filaments on individual DNA molecules.
Nucleic Acids Res. 35, 5646-5657 (2007) pdf
A Crut, D A Koster, R Seidel, C H Wiggins, N H Dekker.
Fast dynamics of supercoiled DNA revealed by single-molecule experiments.
Proc. Natl. Acad. Sci. U.S.A. 104, 11957-11962 (2007) pdf
R Seidel, C Dekker.
Single-molecule studies of nucleic acid motors.
Curr. Opin. Struct. Biol. 17, 80-86 (2007) pdf