Literature DB >> 35635700

Replication Labeling Methods for Super-Resolution Imaging of Chromosome Territories and Chromatin Domains.

Ezequiel Miron1, Joseph Windo1, Fena Ochs1, Lothar Schermelleh2.   

Abstract

Continuing progress in super-resolution microscopy enables the study of sub-chromosomal chromatin organization in single cells with unprecedented detail. Here we describe refined methods for pulse-chase replication labeling of individual chromosome territories (CTs) and replication domain units in mammalian cell nuclei, with specific focus on their application to three-dimensional structured illumination microscopy (3D-SIM). We provide detailed protocols for highly efficient electroporation-based delivery or scratch loading of cell-impermeable fluorescent nucleotides for live-cell studies. Furthermore, we describe the application of (2'S)-2'-deoxy-2'-fluoro-5-ethynyluridine (F-ara-EdU) and 5-vinyl-2'-deoxyuridine (VdU) for the in situ detection of segregated chromosome territories and sister chromatids with minimized cytotoxic side effects.
© 2022. The Author(s), under exclusive license to Springer Science+Business Media, LLC, part of Springer Nature.

Entities:  

Keywords:  Chromatin; Chromosome territories; Replication domains; Replication labeling; Structured illumination microscopy; Super-resolution imaging

Mesh：

Substances：

Year:  2022        PMID： 35635700     DOI： 10.1007/978-1-0716-2221-6_9

Source DB:  PubMed          Journal:  Methods Mol Biol        ISSN： 1064-3745


  18 in total

Review 1.  Chromosome territories, nuclear architecture and gene regulation in mammalian cells.

Authors:  T Cremer; C Cremer
Journal:  Nat Rev Genet       Date:  2001-04       Impact factor: 53.242

2.  Three-dimensional resolution doubling in wide-field fluorescence microscopy by structured illumination.

Authors:  Mats G L Gustafsson; Lin Shao; Peter M Carlton; C J Rachel Wang; Inna N Golubovskaya; W Zacheus Cande; David A Agard; John W Sedat
Journal:  Biophys J       Date:  2008-03-07       Impact factor: 4.033

Review 3.  Genome architecture: domain organization of interphase chromosomes.

Authors:  Wendy A Bickmore; Bas van Steensel
Journal:  Cell       Date:  2013-03-14       Impact factor: 41.582

Review 4.  Principles of Chromosome Architecture Revealed by Hi-C.

Authors:  Kyle P Eagen
Journal:  Trends Biochem Sci       Date:  2018-04-21       Impact factor: 13.807

Review 5.  A guide to super-resolution fluorescence microscopy.

Authors:  Lothar Schermelleh; Rainer Heintzmann; Heinrich Leonhardt
Journal:  J Cell Biol       Date:  2010-07-19       Impact factor: 10.539

6.  Comprehensive mapping of long-range interactions reveals folding principles of the human genome.

Authors:  Erez Lieberman-Aiden; Nynke L van Berkum; Louise Williams; Maxim Imakaev; Tobias Ragoczy; Agnes Telling; Ido Amit; Bryan R Lajoie; Peter J Sabo; Michael O Dorschner; Richard Sandstrom; Bradley Bernstein; M A Bender; Mark Groudine; Andreas Gnirke; John Stamatoyannopoulos; Leonid A Mirny; Eric S Lander; Job Dekker
Journal:  Science       Date:  2009-10-09       Impact factor: 47.728

7.  3C-based technologies to study the shape of the genome.

Authors:  Wouter de Laat; Job Dekker
Journal:  Methods       Date:  2012-11       Impact factor: 3.608

Review 8.  Super-resolution microscopy demystified.

Authors:  Lothar Schermelleh; Alexia Ferrand; Thomas Huser; Christian Eggeling; Markus Sauer; Oliver Biehlmaier; Gregor P C Drummen
Journal:  Nat Cell Biol       Date:  2019-01-02       Impact factor: 28.824

Review 9.  Chromatin at the nuclear periphery and the regulation of genome functions.

Authors:  Charlene Lemaître; Wendy A Bickmore
Journal:  Histochem Cell Biol       Date:  2015-07-14       Impact factor: 4.304

Review 10.  Functional implications of genome topology.

Authors:  Giacomo Cavalli; Tom Misteli
Journal:  Nat Struct Mol Biol       Date:  2013-03       Impact factor: 15.369
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