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Plant Chromatin Dynamics

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Cover of 'Plant Chromatin Dynamics'

Table of Contents

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    Book Overview
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    Chapter 1 Profiling Developmentally and Environmentally Controlled Chromatin Reprogramming
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    Chapter 2 Profiling DNA Methylation Using Bisulfite Sequencing (BS-Seq)
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    Chapter 3 Bisulfite Sequencing Using Small DNA Amounts
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    Chapter 4 Identification of Differentially Methylated Regions in the Genome of Arabidopsis thaliana
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    Chapter 5 A Rapid and Efficient ChIP Protocol to Profile Chromatin Binding Proteins and Epigenetic Modifications in Arabidopsis
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    Chapter 6 Sequential ChIP Protocol for Profiling Bivalent Epigenetic Modifications (ReChIP)
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    Chapter 7 A Method to Identify Nucleolus-Associated Chromatin Domains (NADs)
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    Chapter 8 Cell Type-Specific Profiling of Chromatin Modifications and Associated Proteins
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    Chapter 9 Mapping of Histone Modifications in Plants by Tandem Mass Spectrometry
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    Chapter 10 Histone H1 Purification and Post-Translational Modification Profiling by High–Resolution Mass Spectrometry
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    Chapter 11 Profiling Nucleosome Occupancy by MNase-seq: Experimental Protocol and Computational Analysis
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    Chapter 12 Identification of Open Chromatin Regions in Plant Genomes Using ATAC-Seq
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    Chapter 13 Unraveling the Complex Epigenetic Mechanisms that Regulate Gene Activity
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    Chapter 14 Technical Review: A Hitchhiker’s Guide to Chromosome Conformation Capture
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    Chapter 15 3C in Maize and Arabidopsis
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    Chapter 16 Profiling Histone Modifications in Synchronized Floral Tissues for Quantitative Resolution of Chromatin and Transcriptome Dynamics
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    Chapter 17 De Novo Identification of sRNA Loci and Non-coding RNAs by High-Throughput Sequencing
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    Chapter 18 Identification of In Planta Protein–Protein Interactions Using IP-MS
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    Chapter 19 RNA Immunoprecipitation Protocol to Identify Protein–RNA Interactions in Arabidopsis thaliana
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    Chapter 20 In Vitro Assays to Measure Histone Methyltransferase Activity Using Different Chromatin Substrates
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    Chapter 21 Identification of Parent-of-Origin-Dependent QTLs Using Bulk-Segregant Sequencing (Bulk-Seq)
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    Chapter 22 QTLepi Mapping in Arabidopsis thaliana
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    Chapter 23 A Compendium of Methods to Analyze the Spatial Organization of Plant Chromatin
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    Chapter 24 Localization of Chromatin Marks in Arabidopsis Early Embryos
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    Chapter 25 Cell-Type Specific Chromatin Analysis in Whole-Mount Plant Tissues by Immunostaining
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    Chapter 26 Measuring Dynamics of Histone Proteins by Photobleaching in Arabidopsis Roots
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    Chapter 27 Fluorescence In Situ Hybridization (FISH) and Immunolabeling on 3D Preserved Nuclei
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    Chapter 28 High-Affinity LNA–DNA Mixmer Probes for Detection of Chromosome-Specific Polymorphisms of 5S rDNA Repeats in Arabidopsis thaliana
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    Chapter 29 A Method for Testing Random Spatial Models on Nuclear Object Distributions
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    Chapter 30 Technical Review: Cytogenetic Tools for Studying Mitotic Chromosomes
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    Chapter 31 Technical Review: Microscopy and Image Processing Tools to Analyze Plant Chromatin: Practical Considerations
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    Chapter 32 Automated 3D Gene Position Analysis Using a Customized Imaris Plugin: XTFISHInsideNucleus
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    Chapter 33 Quantitative 3D Analysis of Nuclear Morphology and Heterochromatin Organization from Whole-Mount Plant Tissue Using NucleusJ
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    Chapter 34 Transmission Electron Microscopy Imaging to Analyze Chromatin Density Distribution at the Nanoscale Level
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    Chapter 35 Erratum to: Bisulfite Sequencing Using Small DNA Amounts
Attention for Chapter 24: Localization of Chromatin Marks in Arabidopsis Early Embryos
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Chapter title
Localization of Chromatin Marks in Arabidopsis Early Embryos
Chapter number 24
Book title
Plant Chromatin Dynamics
Published in
Methods in molecular biology, January 2018
DOI 10.1007/978-1-4939-7318-7_24
Pubmed ID
Book ISBNs
978-1-4939-7317-0, 978-1-4939-7318-7
Authors

Marcelina García-Aguilar, Daphné Autran

Abstract

During early embryo development, profound changes in chromatin structure and regulation take place. It is difficult to study these changes in plant embryos however, largely because of their relative inaccessibility, which impedes the application of current epigenomic and biochemistry protocols. To circumvent this issue and to analyze the epigenetic status of the embryo at both the cellular and subcellular level, we describe here a simple method to immunolocalize chromatin marks in whole mount early Arabidopsis embryos, either within maternal tissues or isolated from seeds. We show that this protocol can be combined with fluorescent protein markers, allowing for the simultaneous detection of several chromatin components and/or cell fate markers. This new protocol will facilitate deciphering the epigenetic circuits controlling early embryogenesis in plants.

Mendeley readers

The data shown below were compiled from readership statistics for 5 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Unknown 5 100%

Demographic breakdown

Readers by professional status Count As %
Student > Ph. D. Student 2 40%
Researcher 2 40%
Unknown 1 20%
Readers by discipline Count As %
Agricultural and Biological Sciences 3 60%
Biochemistry, Genetics and Molecular Biology 1 20%
Unknown 1 20%