Plant Epigenetics Methods and Protocols 1st Edition by Igor Kovalchuk, Franz Zemp 9781607616450

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ISBN 13: 9781607616450

Author: Igor Kovalchuk, Franz J. Zemp

The discovery of DNA as the genetic material brought great hope to scientists all over the world. It was believed that many of the lingering questions in genetics and the mechanisms of heredity would fnally be answered. However, as often is the case in science, more qu- tions arose out of this discovery. What defnes a gene? What are the mechanisms of gene regulation? Further discovery and technological innovations brought about sequencing techniques that allowed the study of complete genomes from many organisms, including Arabidopsis and humans. Despite all the excitement surrounding these technologies, many features of the genome remained unclear. Peculiar characteristics in genome composition such as signifcant redundancy consisting of many repetitive elements and noncoding sequences, active transcriptional units with no protein product, and unusual sequences in promoter regions added to the mysteries of genetic make-up and gene regulation. Indeed, the more we discovered about the genome, the more diffcult it became to understand the complexity of cellular function and regulation. Out of the study of the intricacies of the genome and gene regulation, arose a new science that was independent of actual DNA changes, but critical in maintaining gene regulation and genetic stability. Epigenetics, literally translated as “above genetics,” is the science that describes the mechanisms of heritable changes in gene regulation that does not involve modifcations of DNA sequence. These changes may last through somatic cell division and, in some cases, throughout multiple generations.

Plant Epigenetics Methods and Protocols 1st Table of contents:

1 Analysis of DNA Methylation in Plants by Bisulfite Sequencing Andrea M. Foerster Ortrun Mittelsten Scheid 

2 Analysis of Bisulfite Sequencing Data from Plant DNA Using CyMATE Andrea M. Foerster Jennifer Hetzl Christoph Müllner Ortrun Mittelsten Scheid 

3 Analysis of Locus-Specific Changes in Methylation Patterns Using a COBRA (Combined Bisulfite Restriction Analysis) Assay Alex Boyko Igor Kovalchuk 

4 Detection of Changes in Global Genome Methylation Using the Cytosine-Extension Assay Alex Boyko Igor Kovalchuk 

5 In Situ Analysis of DNA Methylation in Plants Palak Kathiria Igor Kovalchuk 

6 Analysis of Mutation/Rearrangement Frequencies and Methylation Patterns at a Given DNA Locus Using Restriction Fragment Length Polymorphism Alex Boyko Igor Kovalchuk 

7 Isoschizomers and Amplified Fragment Length Polymorphism for the Detection of Specific Cytosine Methylation Changes Leonor Ruiz-García Jose Antonio Cabezas Nuria de María María-Teresa Cervera 

8 Analysis of Small RNA Populations Using Hybridization to DNA Tiling Arrays Martine Boccara Alexis Sarazin Bernard Billoud Agnes Bulski Louise Chapell David Baulcombe Vincent Colot 

9 Northern Blotting Techniques for Small RNAs Todd Blevins 

10 qRT-PCR of Small RNAs Erika Varkonyi-Gasic Roger P. Hellens 

11 Cloning New Small RNA Sequences Yuko Tagami Naoko Inaba Yuichiro Watanabe 

12 Genome-Wide Mapping of Protein-DNA Interaction by Chromatin Immunoprecipitation and DNA Microarray Hybridization (ChIP-chip). Part A: ChIP-chip Molecular Methods Julia J. Reimer Franziska Turck 

13 Genome-Wide Mapping of Protein-DNA Interaction by Chromatin Immunoprecipitation and DNA Microarray Hybridization (ChIP-chip). Part B: ChIP-chip Data Analysis Ulrike Göbel Julia Reimer Franziska Turck 

14 Metaanalysis of ChIP-chip Data Julia Engelhorn Franziska Turck 

15 Chromatin Immunoprecipitation Protocol for Histone Modifications and Protein-DNA Binding Analyses in Arabidopsis Stéphane Pien Ueli Grossniklaus 

16 cDNA Libraries for Virus-Induced Gene Silencing Andrea T. Todd Enwu Liu Jonathan E. Page 

17 Detection and Quantification of DNA Strand Breaks Using the ROPS (Random Oligonucleotide Primed Synthesis) Assay Alex Boyko Igor Kovalchuk 

18 Reporter Gene-Based Recombination Lines for Studies of Genome Stability Palak Kathiria Igor Kovalchuk 

19 Plant Transgenesis Alicja Ziemienowicz 

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Igor Kovalchuk,Franz Zemp,Plant,Epigenetics,Methods