Short talk Single-molecule enzymology of chromatin ubiquitination

A. Teslenko; B. Fierz 

2023-07-01.  p. S26-S26.

Tubulin engineering by semi-synthesis reveals that polyglutamylation directs detyrosination

E. Ebberink; S. Fernandes; G. Hatzopoulos; N. Agashe; P-H. Chang et al. 

Nature Chemistry. 2023-06-29. DOI : 10.1038/s41557-023-01228-8.

Target search dynamics of Sox transcription factors

S. Sakong; D. Suter; B. Fierz 

2023-02-10.  p. 73A-73A.

Development of multiplexed single-molecule imaging techniques to study chromatin invasion dynamics of chromatin effector proteins

K. Makasheva / B. Fierz (Dir.)  

Lausanne, EPFL, 2023. 


Multivalent Peptide Ligands To Probe the Chromocenter Microenvironment in Living Cells

N. Guidotti; Á. Eördögh; M. Mivelaz; P. Rivera-Fuentes; B. Fierz 

ACS Chemical Biology. 2022-04-21. DOI : 10.1021/acschembio.2c00203.

Multiplexed single-molecule experiments reveal Cas9 nucleosome invasion dynamics

K. Makasheva; L. Bryan; M. Jinek; B. Fierz 

2022-02-11.  p. 159A-160A. DOI : 10.1016/j.bpj.2021.11.1928.

Development of a single-molecule approach to observe ubiquitination dynamics in defined chromatin states

A. Teslenko; B. Fierz 

2022-02-11.  p. 345A-345A. DOI : 10.1016/j.bpj.2021.11.1021.

Release of linker histone from the nucleosome driven by polyelectrolyte competition with a disordered protein

P. O. Heidarsson; D. Mercadante; A. Sottini; D. Nettels; M. B. Borgia et al. 

Nature Chemistry. 2022-01-06. Vol. 14, p. 224–231. DOI : 10.1038/s41557-021-00839-3.


Multiplexed Single-Molecule Experiments Reveal Nucleosome Invasion Dynamics of the Cas9 Genome Editor

K. Makasheva; L. C. Bryan; C. Anders; S. Panikulam; M. Jinek et al. 

Journal Of The American Chemical Society. 2021-10-13. Vol. 143, num. 40, p. 16313-16319. DOI : 10.1021/jacs.1c06195.

O-GlcNAcylation of High Mobility Group Box 1 (HMGB1) Alters Its DNA Binding and DNA Damage Processing Activities

A. T. Balana; A. Mukherjee; H. Nagpal; S. P. Moon; B. Fierz et al. 

Journal Of The American Chemical Society. 2021-10-06. Vol. 143, num. 39, p. 16030-16040. DOI : 10.1021/jacs.1c06192.

SUV39 SET domains mediate crosstalk of heterochromatic histone marks

A. Stirpe; N. Guidotti; S. J. Northall; S. Kilic; A. Hainard et al. 

Elife. 2021-09-15. Vol. 10, p. e62682. DOI : 10.7554/eLife.62682.

A single-molecule multiplexed approach to study Cas9 nucleosomes invasion

K. Makasheva; L. Bryan; B. Fierz 

2021-07-01.  p. 191-191.

Development of a single-molecule approach to observe ubiquitination dynamics in defined chromatin states

A. Teslenko; B. Fierz 

2021-07-01.  p. 86-86.

Applying Peptide and Protein Synthesis to Study Post-translational Modifications in Epigenetics and Beyond

B. Fierz 

Chimia. 2021-06-01. Vol. 75, num. 6, p. 484-488. DOI : 10.2533/chimia.2021.484.

Dynamic Chromatin Invasion and Remodeling by the Transcription Factor Rap1

M. N. Mivelaz / B. Fierz (Dir.)  

Lausanne, EPFL, 2021. 


Torsin ATPases influence chromatin interaction of the Torsin regulator LAP1

N. Luithle; J. u. de Bos; R. Hovius; D. Maslennikova; R. T. M. Lewis et al. 

Elife. 2020-12-15. Vol. 9, p. e63614. DOI : 10.7554/eLife.63614.

Observing protein interaction dynamics to chemically defined chromatin fibers by colocalization single-molecule fluorescence microscopy

M. Mivelaz; B. Fierz 

Methods. 2020-12-01. Vol. 184, p. 112-124. DOI : 10.1016/j.ymeth.2020.01.018.

The Elusive Structure of Centro-Chromatin: Molecular Order or Dynamic Heterogenetity?

H. Nagpal; B. Fierz 

Journal of Molecular Biology. 2020-10-14. Vol. 433, num. 6, p. 166676. DOI : 10.1016/j.jmb.2020.10.010.

BAF restricts cGAS on nuclear DNA to prevent innate immune activation

B. Guey; M. Wischnewski; A. Decout; K. Makasheva; M. Kaynak et al. 

Science. 2020-08-14. Vol. 369, num. 6505, p. 823-828. DOI : 10.1126/science.aaw6421.

Nucleosome Binding by the Lysine Specific Demethylase 1 (LSD1) Enzyme Enables Histone H3 Demethylation

A. Dhall; P. M. M. Shelton; A. Delachat; C. J. A. Leonen; B. Fierz et al. 

Biochemistry. 2020-07-14. Vol. 59, num. 27, p. 2479-2483. DOI : 10.1021/acs.biochem.0c00412.

Structural mechanism of cGAS inhibition by the nucleosome

G. R. Pathare; A. Decout; S. Glück; S. Cavadini; K. Makasheva et al. 

Nature. 2020. Vol. 587, p. 668–672. DOI : 10.1038/s41586-020-2750-6.

Development of chemical biology tools to reveal the function and organization of the silenced chromatin state

N. Guidotti / B. Fierz; V. Hatzimanikatis (Dir.)  

Lausanne, EPFL, 2020. 

Chromatin Fiber Invasion and Nucleosome Displacement by the Rap1 Transcription Factor

M. Mivelaz; A-M. Cao; S. Kubik; S. Zencir; R. Hovius et al. 

Molecular Cell. 2020. Vol. 77, num. 3, p. 488-500.e9. DOI : 10.1016/j.molcel.2019.10.025.


“Doubly Orthogonal” Labeling of Peptides and Proteins

R. Tessier; J. Ceballos; N. Guidotti; R. Simonet-Davin; B. Fierz et al. 

Chem. 2019-08-08. Vol. 5, num. 8, p. 2243-2263. DOI : 10.1016/j.chempr.2019.06.002.

KAP1 is an antiparallel dimer with a functional asymmetry

G. Fonti; M. J. Marcaida; L. C. Bryan; S. Traeger; A. S. Kalantzi et al. 

Life Science Alliance. 2019-08-01. Vol. 2, num. 4, p. e201900349. DOI : 10.26508/lsa.201900349.

Chemical and biophysical methods to explore dynamic mechanisms of chromatin silencing

I. Boichenko; B. Fierz 

Current Opinion In Chemical Biology. 2019-08-01. Vol. 51, p. 1-10. DOI : 10.1016/j.cbpa.2019.01.022.

Gene control with a “twist”: Exploring the dynamic chromatin landscape Gene control with a “twist”: Exploring the dynamic chromatin landscape

B. Fierz 

2019-07-01. Joint 12th EBSA European Biophysics Congress / 10th IUPAP International Conference on Biological Physics (ICBP), Madrid, SPAIN, Jul 20-24, 2019. p. S36-S36.

Revealing dynamic chromatin invasion by pioneer transcription factors on the single-molecule scale

B. Fierz 

2019-05-10.  p. 55-55.

A Modular Ligation Strategy for Asymmetric Bivalent Nucleosomes Trimethylated at K36 and K27

N. Guidotti; C. C. Lechner; A. L. Bachmann; B. Fierz 

Chembiochem. 2019-05-02. Vol. 20, num. 9, p. 1124-1128. DOI : 10.1002/cbic.201800744.

Revealing chromatin organization in metaphase chromosomes

B. Fierz 

Embo Journal. 2019-04-01. Vol. 38, num. 7, p. e101699. DOI : 10.15252/embj.2019101699.

Chromatin Remodeling Induced by the Invasion of Yeast Pioneer Transcription Factor Rap1 Revealed by Single-Molecule FRET

A-M. Cao; M. Mivelaz; I. Boichenko; L. Bryan; S. Kubik et al. 

2019-02-15. 63rd Annual Meeting of the Biophysical-Society, Baltimore, MD, Mar 02-06, 2019. p. 39A-40A. DOI : 10.1016/j.bpj.2018.11.258.

Biophysics of Chromatin Dynamics

B. Fierz; M. G. Poirier 

Annual Review Of Biophysics, Vol 48. 2019-01-01. Vol. 48, p. 321-345. DOI : 10.1146/annurev-biophys-070317-032847.

Protein Engineering Tools to Explore the Function of Protein Post-Translational Modifications for Chromatin and Microtubule Cytoskeletal Biology

N. D. Agashe / B. Fierz (Dir.)  

Lausanne, EPFL, 2019. 

Single-molecule dynamics and genome-wide transcriptomics reveal that NF-kB (p65)-DNA binding times can be decoupled from transcriptional activation

A. Callegari; C. Sieben; A. Benke; D. M. Suter; B. Fierz et al. 

Plos Genetics. 2019-01-01. Vol. 15, num. 1, p. e1007891. DOI : 10.1371/journal.pgen.1007891.


A bi-terminal protein ligation strategy to probe chromatin structure during DNA damage

S. Kilic; I. Boichenko; C. C. Lechner; B. Fierz 

Chemical Science. 2018-03-21. Vol. 9, num. 15, p. 3704-3709. DOI : 10.1039/C8SC00681D.

Engineered Multivalent Sensors to Detect Coexisting Histone Modifications in Living Stem Cells

A. M-F. Delachat; N. Guidotti; A. L. Bachmann; A. C. Meireles-Filho; H. Pick et al. 

Cell Chemical Biology. 2018-01-18. Vol. 25, num. 1, p. 51-56. DOI : 10.1016/j.chembiol.2017.10.008.

Deciphering the chromatin binding mechanisms of human HP1 variants at the single-molecule level

L. C. Bryan / B. Fierz (Dir.)  

Lausanne, EPFL, 2018. 

Dynamic protein-chromatin interactions in heterochromatin and during the DNA damage response on the single molecule level

A. L. Bachmann / B. Fierz (Dir.)  

Lausanne, EPFL, 2018. 

Single-molecule FRET reveals multiscale chromatin dynamics modulated by HP1α

S. Kilic; S. Felekyan; O. Doroshenko; I. Boichenko; M. Dimura et al. 

Nature Communications. 2018. Vol. 9, num. 1, p. 235. DOI : 10.1038/s41467-017-02619-5.


Genetically encoded multivalent sensors to detect bivalent epigenetic modifications in living stem cells

A. M-F. Delachat / B. Fierz (Dir.)  

Lausanne, EPFL, 2017. 

DNA binding by PHF1 prolongs PRC2 residence time on chromatin and thereby promotes H3K27 methylation

J. Choi; A. L. Bachmann; K. Tauscher; C. Benda; B. Fierz et al. 

Nature structural & molecular biology. 2017. Vol. 24, p. 1039-1047. DOI : 10.1038/nsmb.3488.

Single-molecule kinetic analysis of HP1-chromatin binding reveals a dynamic network of histone modification and DNA interactions

L. C. Bryan; D. R. Weilandt; A. L. Bachmann; S. Kilic; C. C. Lechner et al. 

Nucleic Acids Research. 2017. Vol. 45, num. 18, p. 10504–10517. DOI : 10.1093/nar/gkx697.

Dynamic chromatin technologies: from individual molecules to epigenomic regulation in cells

O. Cuvier; B. Fierz 

Nature Reviews Genetics. 2017. Vol. 18, num. 8, p. 457-472. DOI : 10.1038/nrg.2017.28.

Heterochromatin protein 1 recruitment and chromatin conformational dynamics at the single-molecule level

S. Kilic / B. Fierz (Dir.)  

Lausanne, EPFL, 2017. 


2016 International Symposium on Chemical Biology of the NCCR Chemical Biology Campus Biotech, Geneva 13-15.1.2016

O. Hantschel; B. Fierz 

Chimia. 2016. Vol. 70, num. 3, p. 215-9. DOI : 10.2533/chimia.2016.215.

Traceless Synthesis of Asymmetrically Modified Bivalent Nucleosomes

C. C. Lechner; N. D. Agashe; B. Fierz 

Angewandte Chemie-International Edition. 2016. Vol. 55, num. 8, p. 2903-2906. DOI : 10.1002/anie.201510996.

A two-state activation mechanism controls the histone methyltransferase Suv39h1

M. M. Mueller; B. Fierz; L. Bittova; G. Liszczak; T. W. Muir 

Nature Chemical Biology. 2016. Vol. 12, num. 3, p. 188-193. DOI : 10.1038/Nchembio.2008.

Dynamic Chromatin Regulation from a Single Molecule Perspective

B. Fierz 

ACS Chemical Biology. 2016. Vol. 11, num. 3, p. 609-620. DOI : 10.1021/acschembio.5b00832.


Heterochromatin Assembly and Dynamics on the Single Molecule Level

S. Kilic; B. Andreas; L. Bryan; B. Fierz 

2015.  p. 14A-14A. DOI : 10.1016/j.bpj.2014.11.104.

Molecular and Chemical Mechanism in Epigenetics – Swiss Summer School 2015 July 12–17, 2015, Hotel Kurhaus, Arolla, Switzerland

L. C. Bryan; A. L. Bachmann; B. Fierz 

Chimia. 2015. Vol. 69, num. 10, p. 624-626. DOI : 10.2533/chimia.2015.624.

Multivalency governs HP1α association dynamics with the silent chromatin state

S. Kilic; A. L. Bachmann; L. C. Bryan; B. Fierz 

Nature Communications. 2015. Vol. 6, p. 7313. DOI : 10.1038/ncomms8313.


Sumoylated Human Histone H4 Prevents Chromatin Compaction by Inhibiting Long-range Internucleosomal Interactions

A. Dhall; S. Wei; B. Fierz; C. L. Woodcock; T-H. Lee et al. 

Journal of Biological Chemistry. 2014. Vol. 289, num. 49, p. 33827-33837. DOI : 10.1074/jbc.M114.591644.

Accelerated chromatin biochemistry using DNA-barcoded nucleosome libraries

U. T. T. Nguyen; L. Bittova; M. M. Müller; B. Fierz; Y. David et al. 

Nature Methods. 2014. Vol. 11, p. 834–840. DOI : 10.1038/nmeth.3022.

Engineering chromatin states: Chemical and synthetic biology approaches to investigate histone modification function

H. Pick; S. Kilic; B. Fierz 

Biochimica et Biophysica Acta (BBA) – Gene Regulatory Mechanisms. 2014. Vol. 1839, num. 8, p. 644-656. DOI : 10.1016/j.bbagrm.2014.04.016.

Synthetic Chromatin Approaches To Probe the Writing and Erasing of Histone Modifications

B. Fierz 

ChemMedChem. 2014. Vol. 9, num. 3, p. 495-504. DOI : 10.1002/cmdc.201300487.


Histone H3 K27 trimethylation inhibits H3 binding and function of SET1-like H3K4 methyltransferase complexes

D-H. Kim; Z. Tang; M. Shimada; B. Fierz; B. Houck-Loomis et al. 

Molecular and Cellular Biology. 2013. Vol. 33, num. 24, p. 4936-4946. DOI : 10.1128/MCB.00601-13.

Testing the diffusing boundary model for the helix-coil transition in peptides

S. Neumaier; A. Reiner; M. Büttner; B. Fierz; T. Kiefhaber 

Proceedings of the National Academy of Sciences. 2013. Vol. 110, num. 32, p. 12905-12910. DOI : 10.1073/pnas.1303515110.


Stability of Nucleosomes Containing Homogenously Ubiquitylated H2A and H2B Prepared Using Semisynthesis

B. Fierz; S. Kilic; A. R. Hieb; K. Luger; T. W. Muir 

Journal of the American Chemical Society. 2012. Vol. 134, num. 48, p. 19548-51. DOI : 10.1021/ja308908p.

Chromatin as an expansive canvas for chemical biology

B. Fierz; T. W. Muir 

Nature chemical biology. 2012. Vol. 8, num. 5, p. 417-27. DOI : 10.1038/nchembio.938.

Histone monoubiquitylation position determines specificity and direction of enzymatic cross-talk with histone methyltransferases Dot1L and PRC2

S. J. Whitcomb; B. Fierz; R. K. McGinty; M. Holt; T. Ito et al. 

The Journal of biological chemistry. 2012. Vol. 287, num. 28, p. 23718-25. DOI : 10.1074/jbc.M112.361824.


Histone H2B ubiquitylation disrupts local and higher-order chromatin compaction

B. Fierz; C. Chatterjee; R. K. McGinty; M. Bar-Dagan; D. P. Raleigh et al. 

Nature chemical biology. 2011. Vol. 7, num. 2, p. 113-9. DOI : 10.1038/nchembio.501.


Disulfide-directed histone ubiquitylation reveals plasticity in hDot1L activation

C. Chatterjee; R. K. McGinty; B. Fierz; T. W. Muir 

Nature chemical biology. 2010. Vol. 6, num. 4, p. 267-9. DOI : 10.1038/nchembio.315.


Local conformational dynamics in alpha-helices measured by fast triplet transfer

B. Fierz; A. Reiner; T. Kiefhaber 

Proceedings of the National Academy of Sciences of the United States of America. 2009. Vol. 106, num. 4, p. 1057-62. DOI : 10.1073/pnas.0808581106.


Slow fluorescence and fast intersystem crossing – The xanthone anomaly

B. Heinz; B. Schmidt; C. Root; F. Milota; B. Fierz et al. 

Ultrafast Phenomena XV; Berlin: Springer, 2007. p. 513-515.

End-to-end vs interior loop formation kinetics in unfolded polypeptide chains

B. Fierz; T. Kiefhaber 

Journal of the American Chemical Society. 2007. Vol. 129, num. 3, p. 672-679. DOI : 10.1021/ja0666396.

Loop formation in unfolded polypeptide chains on the picoseconds to microseconds time scale

B. Fierz; H. Satzger; C. Root; P. Gilch; W. Zinth et al. 

Proceedings of the National Academy of Sciences of the United States of America. 2007. Vol. 104, num. 7, p. 2163-8. DOI : 10.1073/pnas.0611087104.


On the unusual fluorescence properties of xanthone in water

B. Heinz; B. Schmidt; C. Root; H. Satzger; F. Milota et al. 

Physical chemistry chemical physics : PCCP. 2006. Vol. 8, num. 29, p. 3432-3439. DOI : 10.1039/b603560d.

Using triplet-triplet energy transfer to measure conformational dynamics in polypeptide chains

B. Fierz; K. Joder; F. Krieger; T. Kiefhaber 

Protein Folding Protocols; Humana Press, 2006. p. 169-187.


Dynamics of Unfolded Polypeptide Chains

B. Fierz; T. Kiefhaber 

Protein folding handbook; Weinheim: Wiley-VCH, 2005. p. 809-855.


Intrachain diffusion in a protein loop fragment from carp parvalbumin

F. Krieger; B. Fierz; F. Axthelm; K. Joder; D. Meyer et al. 

Chemical Physics. 2004. Vol. 307, num. 2-3 SPEC.ISS., p. 209-215. DOI : 10.1016/j.chemphys.2004.05.036.

Ultrafast quenching of the xanthone triplet by energy transfer: New insight into the intersystem crossing kinetics

H. Satzger; B. Schmidt; C. Root; W. Zinth; B. Fierz et al. 

Journal of Physical Chemistry A. 2004. Vol. 108, num. 46, p. 10072-10079. DOI : 10.1021/jp047583.


Dynamics of unfolded polypeptide chains as model for the earliest steps in protein folding

F. Krieger; B. Fierz; O. Bieri; M. Drewello; T. Kiefhaber 

Journal of Molecular Biology. 2003. Vol. 332, num. 1, p. 265-274. DOI : 10.1016/S0022-2836(03)00892-1.