Plant Epigenetics and Epigenomics

Many fundamental discoveries concerning epigenetics and the elucidation of mechanisms of epigenetic regulation have developed from studies performed in plants. In Plant Epigenetics and Epigenomics: Methods and Protocols , leading scientists in the epigenetics field describe comprehensive techniques that have been developed to understand the plant epigenetic landscape.  These include recently developed methods and techniques for analysis of epigenetically regulated traits, such as flowering time, transposon activation, genomic imprinting and genome dosage effects. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and key tips on troubleshooting and avoidance of known pitfalls.

Landscaping Plant Epigenetics.- The Gene Balance Hypothesis: Dosage Effects in Plants.- High-throughput RNA-Seq for Allelic or Locus-specific Expression Analysis in Arabidopsis Related Species, Hybrids, and Allotetraploids.- Inference of Allele-specific Expression from RNA-seq Data.- Screening for Imprinted Genes using High Resolution Melting Analysis of PCR Amplicons.- Analysis of Genomic Imprinting by Quantitative Allele-specific Expression by Pyrosequencing®.- Endosperm-specific Chromatin Profiling by Fluorescence-activated Nuclei Sorting and Chip-on-chip.- Imaging Sexual Reproduction in Arabidopsis using Fluorescent Markers.- Genome-wide Analysis of DNA Methylation in Arabidopsis using MeDIP-chip.- Methylation-Sensitive Amplified Polymorphism (MSAP) Marker to Investigate Drought-stress Response in Montepulciano and Sangiovese Grape Cultivars.- Detecting Histone Modifications in Plants.- Quantitatively Profiling Genome-wide Patterns of Histone Modifications in Arabidopsis thaliana using ChIP-seq.- Analysis of Retrotransposon Activity in Plants.- Detecting Epigenetic Effects of Transposable Elements in Plants.- Detection and Investigation of Transitive Gene Silencing Effects in Plants.