Literature DB >> 27219518

Differentially Isotope-Labeled Nucleosomes To Study Asymmetric Histone Modification Crosstalk by Time-Resolved NMR Spectroscopy.

Stamatios Liokatis1, Rebecca Klingberg2, Song Tan3, Dirk Schwarzer2,4.   

Abstract

Post-translational modifications (PTMs) of histones regulate chromatin structure and function. Because nucleosomes contain two copies each of the four core histones, the establishment of different PTMs on individual "sister" histones in the same nucleosomal context, that is, asymmetric histone PTMs, are difficult to analyze. Here, we generated differentially isotope-labeled nucleosomes to study asymmetric histone modification crosstalk by time-resolved NMR spectroscopy. Specifically, we present mechanistic insights into nucleosomal histone H3 modification reactions in cis and in trans, that is, within individual H3 copies or between them. We validated our approach by using the H3S10phK14ac crosstalk mechanism, which is mediated by the Gcn5 acetyltransferase. Moreover, phosphorylation assays on methylated substrates showed that, under certain conditions, Haspin kinase is able to produce nucleosomes decorated asymmetrically with two distinct types of PTMs.
© 2016 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Entities:  

Keywords:  NMR spectroscopy; chromatin biology; epigenetics; nucleosomes; protein modifications

Mesh：

Substances：

Year:  2016        PMID： 27219518      PMCID： PMC4939407          DOI： 10.1002/anie.201601938

Source DB:  PubMed          Journal:  Angew Chem Int Ed Engl        ISSN： 1433-7851            Impact factor:   15.336


  28 in total

1.  Set9, a novel histone H3 methyltransferase that facilitates transcription by precluding histone tail modifications required for heterochromatin formation.

Authors:  Kenichi Nishioka; Sergei Chuikov; Kavitha Sarma; Hediye Erdjument-Bromage; C David Allis; Paul Tempst; Danny Reinberg
Journal:  Genes Dev       Date:  2002-02-15       Impact factor: 11.361

2.  Centromeric chromatin exhibits a histone modification pattern that is distinct from both euchromatin and heterochromatin.

Authors:  Beth A Sullivan; Gary H Karpen
Journal:  Nat Struct Mol Biol       Date:  2004-10-10       Impact factor: 15.369

3.  Histone modifications defining active genes persist after transcriptional and mitotic inactivation.

Authors:  Antigone Kouskouti; Iannis Talianidis
Journal:  EMBO J       Date:  2004-12-16       Impact factor: 11.598

4.  High-resolution profiling of histone methylations in the human genome.

Authors:  Artem Barski; Suresh Cuddapah; Kairong Cui; Tae-Young Roh; Dustin E Schones; Zhibin Wang; Gang Wei; Iouri Chepelev; Keji Zhao
Journal:  Cell       Date:  2007-05-18       Impact factor: 41.582

Review 5.  Signals and combinatorial functions of histone modifications.

Authors:  Tamaki Suganuma; Jerry L Workman
Journal:  Annu Rev Biochem       Date:  2011       Impact factor: 23.643

6.  Crystal structure of the nucleosome core particle at 2.8 A resolution.

Authors:  K Luger; A W Mäder; R K Richmond; D F Sargent; T J Richmond
Journal:  Nature       Date:  1997-09-18       Impact factor: 49.962

Review 7.  The language of histone crosstalk.

Authors:  Jung-Shin Lee; Edwin Smith; Ali Shilatifard
Journal:  Cell       Date:  2010-09-03       Impact factor: 41.582

8.  Cell signaling, post-translational protein modifications and NMR spectroscopy.

Authors:  Francois-Xavier Theillet; Caroline Smet-Nocca; Stamatios Liokatis; Rossukon Thongwichian; Jonas Kosten; Mi-Kyung Yoon; Richard W Kriwacki; Isabelle Landrieu; Guy Lippens; Philipp Selenko
Journal:  J Biomol NMR       Date:  2012-09-26       Impact factor: 2.835

9.  Site-specific and regiospecific installation of methylarginine analogues into recombinant histones and insights into effector protein binding.

Authors:  Daniel D Le; Arianna T Cortesi; Samuel A Myers; Alma L Burlingame; Danica Galonić Fujimori
Journal:  J Am Chem Soc       Date:  2013-02-19       Impact factor: 15.419

10.  The site-specific installation of methyl-lysine analogs into recombinant histones.

Authors:  Matthew D Simon; Feixia Chu; Lisa R Racki; Cecile C de la Cruz; Alma L Burlingame; Barbara Panning; Geeta J Narlikar; Kevan M Shokat
Journal:  Cell       Date:  2007-03-09       Impact factor: 41.582
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  8 in total

1.  Reconstitution of Nucleosomes with Differentially Isotope-labeled Sister Histones.

Authors:  Stamatios Liokatis
Journal:  J Vis Exp       Date:  2017-03-26       Impact factor: 1.355

Review 2.  Novel genetic tools for probing individual H3 molecules in each nucleosome.

Authors:  Yuichi Ichikawa; Paul D Kaufman
Journal:  Curr Genet       Date:  2018-11-26       Impact factor: 3.886

Review 3.  Visualizing Conformational Ensembles of the Nucleosome by NMR.

Authors:  Catherine A Musselman; Tatiana G Kutateladze
Journal:  ACS Chem Biol       Date:  2022-02-23       Impact factor: 4.634

Review 4.  Janus Bioparticles: Asymmetric Nucleosomes and Their Preparation Using Chemical Biology Approaches.

Authors:  Michelle M Mitchener; Tom W Muir
Journal:  Acc Chem Res       Date:  2021-07-28       Impact factor: 24.466

5.  The Chd1 chromatin remodeler shifts hexasomes unidirectionally.

Authors:  Robert F Levendosky; Anton Sabantsev; Sebastian Deindl; Gregory D Bowman
Journal:  Elife       Date:  2016-12-29       Impact factor: 8.140

6.  Characteristic H3 N-tail dynamics in the nucleosome core particle, nucleosome, and chromatosome.

Authors:  Ayako Furukawa; Masatoshi Wakamori; Yasuhiro Arimura; Hideaki Ohtomo; Yasuo Tsunaka; Hitoshi Kurumizaka; Takashi Umehara; Yoshifumi Nishimura
Journal:  iScience       Date:  2022-02-17

7.  A synthetic biology approach to probing nucleosome symmetry.

Authors:  Yuichi Ichikawa; Caitlin F Connelly; Alon Appleboim; Thomas Cr Miller; Hadas Jacobi; Nebiyu A Abshiru; Hsin-Jung Chou; Yuanyuan Chen; Upasna Sharma; Yupeng Zheng; Paul M Thomas; Hsuiyi V Chen; Vineeta Bajaj; Christoph W Müller; Neil L Kelleher; Nir Friedman; Daniel Na Bolon; Oliver J Rando; Paul D Kaufman
Journal:  Elife       Date:  2017-09-12       Impact factor: 8.140

Review 8.  Cell‑specific histone modifications in atherosclerosis (Review).

Authors:  Wanlin Jiang; Devendra K Agrawal; Chandra S Boosani
Journal:  Mol Med Rep       Date:  2018-06-06       Impact factor: 2.952
  8 in total

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