20032018
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Research Output 2003 2018

2018

Unraveling the biophysical properties of chromatin proteins and DNA using acoustic force spectroscopy

Lin, S. N., Qin, L., Wuite, G. J. L. & Dame, R. T., 2018, Methods in Molecular Biology: Bacterial Chromatin. Humana Press Inc, Vol. 1837. p. 301-316 16 p. (Methods in Molecular Biology; vol. 1837).

Research output: Chapter in Book / Report / Conference proceedingChapterAcademicpeer-review

Acoustics
Chromatin
Spectrum Analysis
DNA
Proteins
2017

Probing the mechanical stability of bridged DNA-H-NS protein complexes by single-molecule AFM pulling

Liang, Y., van der Valk, R. A., Dame, R. T., Roos, W. H. & Wuite, G. J. L., 10 Nov 2017, In : Scientific Reports. 7, 15275.

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access

Switching between Exonucleolysis and Replication by T7 DNA Polymerase Ensures High Fidelity

Hoekstra, T. P., Depken, M., Lin, S-N., Cabanas-Danes, J., Gross, P., Dame, R. T., Peterman, E. J. G. & Wuite, G. J. L., 28 Feb 2017, In : Biophysical Journal. 112, 4, p. 575-583

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access

The Interplay between a Bacterial Chromatin Protein and DNA Polymerase

Lin, S-N., Dame, R. T. & Wuite, G. J. L., 3 Feb 2017, In : Biophysical Journal. 112, 3, p. 513A-513A

Research output: Contribution to JournalMeeting AbstractAcademic

2016

Diverse architectural properties of Sso10a proteins: Evidence for a role in chromatin compaction and organization

Driessen, R. P. C., Lin, S., Waterreus, W. J., van der Meulen, A. L. H., van der Valk, R. A., Laurens, N., Moolenaar, G. F., Pannu, N. S., Wuite, G. J. L., Goosen, N. & Dame, R. T., 2016, In : Scientific Reports. 6, 29422.

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
Chromatin
DNA
Proteins
Helix-Turn-Helix Motifs
Sulfolobus solfataricus
2015

Resolving the Kinetic States of a Proofreading DNA Polymerase

Lin, S., Cabanas Danes, J., Hoekstra, T. P., Kamsma, D., Sitters, G., Depken, S. M., Dame, R. T. & Wuite, G. J. L., 2015, In : Biophysical Journal. 108, 2, p. 70A-70A

Research output: Contribution to JournalMeeting AbstractOther research output

2014

Effect of Temperature on the Intrinsic Flexibility of DNA and Its Interaction with Architectural Proteins

Driessen, R. P. C., Sitter, G., Moolenaar, G. F., Wuite, G. J. L., Goosen, N. & Dame, R. T., 2014, In : Biochemistry. 2014, 53, p. 6430-6438

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
Temperature
DNA
Proteins
Micromanipulation
Chromatin

Probing the Unbinding Kinetics of DNA-H-NS-DNA Protein Complexes by a High-Speed and High-Throughput Single-Molecule Pulling Assay using Atomic Force Microscopy

Liang, Y., Baclayon, M., van der Valk, R., Dame, R. T., Roos, W. H. & Wuite, G. J. L., 2014, In : Biophysical Journal. 106, 2, p. 386A-386A

Research output: Contribution to JournalMeeting AbstractOther research output

Open Access
2012

Alba shapes the archaeal genome using a delicate balance of bridging and stiffening the DNA

Laurens, N., Driessen, R. P. C., Heller, I., Vorselen, D., Noom, M. C., Hol, F. J. H., White, M. F., Dame, R. T. & Wuite, G. J. L., 2012, In : Nature Communications. 3, 1328.

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
File
Archaeal Genome
stiffening
genome
deoxyribonucleic acid
Genes
2011

JUMPING MODE ATOMIC FORCE MICROSCOPY ON GRANA MEMBRANES FROM SPINACH

Sznee, K., Dekker, J. P., Dame, R. T., Van Roon, H., Wuite, G. J. L. & Frese, R. N., 2011, In : Journal of Biological Chemistry. 286, 45, p. 39164-39171

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
File
Thylakoids
Spinacia oleracea
Atomic Force Microscopy
Atomic force microscopy
Photosystem II Protein Complex
2010

Ultrastructure and organization of bacterial chromosomes

Dame, R. T. & Dorman, C. J., 2010, Dordrecht: Springer. 9 p.

Research output: Book / ReportBookAcademicpeer-review

Bacterial Chromosomes
DNA Replication
Confined Spaces
Bacteria
Bacterial Genomes
2009

Protein mediated bridging motifs: a key mechanism in biopolymer organization

Wiggins, P. A., Dame, R. T., Noom, M. C. & Wuite, G. J. L., 2009, In : Biophysical Journal. 97, 7, p. 1997-2003 7 p.

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
Biopolymers
Proteins
Histones
Chromatin
Optical Tweezers
2008

Single-molecule micromanipulation studies of DNA and architectural proteins

Dame, R. T., 2008, In : Biochemical Society Transactions. 36, p. 732-737

Research output: Contribution to JournalArticleAcademicpeer-review

Micromanipulation
Molecules
DNA
Proteins
Archaea

The Major Architects of Chromatin: Architectural Proteins in Bacteria, Archaea and Eukaryotes

Luijsterburg, M. S., White, M., van Driel, R. & Dame, R. T., 2008, In : Critical Reviews in Biochemistry and Molecular Biology. 43, 6, p. 393-418

Research output: Contribution to JournalArticleAcademicpeer-review

Archaea
Eukaryota
Chromatin
Bacteria
DNA
2007

H-NS promotes looped domain formation in the bacterial chromosome

Noom, M. C., Navarre, W. W., Oshima, T., Wuite, G. J. L. & Dame, R. T., 2007, In : Current Biology. 17, 21, p. R913-R914

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
Bacterial Chromosomes
Chromosomes
histones
Histones
chromosomes
2006

Bacterial chromatin organization by H-NS protein unravelled using dual DNA manipulation

Dame, R. T., Noom, M. C. & Wuite, G. J. L., 2006, In : Nature. 444, 7117, p. 387-390

Research output: Contribution to JournalArticleAcademicpeer-review

Histones
Chromatin
DNA
Proteins
Optical tweezers

The architectural role of nucleoid-associated proteins in the organization of bacterial chromatin: A molecular perspective

Luijsterburg, M. S., Noom, M. C., Wuite, G. J. L. & Dame, R. T., 2006, In : Journal of Structural Biology. 156, 2, p. 262-272

Research output: Contribution to JournalArticleAcademicpeer-review

Chromatin
DNA
Proteins
Bacterial Genomes
Cell Size

The expanded octarepeat domain selectively binds prions and disrupts homomeric prion protein interactions

Leliveld, S. R., Dame, R. T., Wuite, G. J. L., Stitz, L. & Korth, C., 2006, In : Journal of Biological Chemistry. 281, 6, p. 3268-3275

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
File
Prions
Creutzfeldt-Jakob Syndrome
Genes
Proteins
Prion Proteins
2005

Analysis of scanning force microscopy images of protein-induced DNA bending using simulations (vol 33, pg 68, 2005)

Dame, R. T., van Mameren, J., Luijsterburg, M. S., Mysiak, M. E., Janicijevic, A., Pazdzior, G., van Vliet, P. W., Wyman, C. & Wuite, G. J. L., 2005, In : Nucleic Acids Research. 33, 8, p. 2767-2767 1 p.

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
File

DNA bridging: a property shared among H-NS-like proteins

Dame, R. T., Luijsterburg, M. S., Krin, E., Bertin, P. N., Wagner, R. & Wuite, G. J. L., 2005, In : Journal of Bacteriology. 187, 5, p. 1845-1848

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
File
Gram-Negative Bacteria
Chromatin
Escherichia coli
DNA
Proteins

The role of nucleoid-associated proteins in the organization and compaction of bacterial chromatin

Dame, R. T., 2005, In : Molecular Microbiology. 56, 4, p. 858-870

Research output: Contribution to JournalArticleAcademicpeer-review

Chromatin
Bacterial DNA
DNA
Body Size
Proteins
2004

Apoptin's functional N- and C-termini independently bind DNA

Leliveld, S. R., Dame, R. T., Rohn, J. L., Noteborn, M. H. M. & Abrahams, J. P., 2004, In : FEBS Letters. 557, 1-3, p. 155-158

Research output: Contribution to JournalArticleAcademicpeer-review

DNA
Nucleoproteins
Cells
Apoptosis
Heterochromatin

Dual architectural roles of HU: Formation of flexible hinges and rigid filaments

van Noort, J. M., Verbrugge, S., Goosen, N., Dekker, C. & Dame, R. T., 2004, In : Proceedings of the National Academy of Sciences of the United States of America. 101, 18, p. 6969-6974

Research output: Contribution to JournalArticleAcademicpeer-review

DNA
Nucleoproteins
Atomic Force Microscopy
Escherichia coli Proteins
Proteins

Single-molecule FRET microscopy of DNA bending by bacterial nucleoid proteins

Raarup, M. K., Chandler, D. W., Dame, R. T., Goosen, N. & Schmidt, T., 2004, In : Unknown journal. p. 327A-327A

Research output: Contribution to JournalArticleAcademicpeer-review

2003

Apoptin protein multimers form distinct higher-order nucleoprotein complexes with DNA

Leliveld, S. R., Dame, R. T., Mommaas, M. A., Koerten, H. K., Wyman, C., Danen-van Oorschot, A., Rohn, J. L., Noteborn, M. H. M. & Abrahams, J. P., 2003, In : Nucleic Acids Research. 31, 16, p. 4805-4813

Research output: Contribution to JournalArticleAcademicpeer-review

Nucleoproteins
DNA
Proteins
Apoptosis
Neoplasms

Insights into the regulation of transcription by scanning force microscopy

Dame, R. T., Wyman, C. & Goosen, N., 2003, In : Journal of Microscopy. 212, p. 244-253

Research output: Contribution to JournalArticleAcademicpeer-review

Atomic Force Microscopy
DNA
Proteins

On the role of H-NS in the organization of bacterial chromatin: From bulk to single molecules and back

Dame, R. T. & Wuite, G. J. L., 2003, In : Biophysical Journal. 85, 6, p. 4146-4148

Research output: Contribution to JournalArticleAcademicpeer-review

Open Access
File