Plant Functional Genomics Methods and Protocols, Volume 1

An Overview of High-Throughput Crop Phenotyping: Platform, Image Analysis, Data Mining, and Data Management.- A High-Throughput Approach for Photosynthesis Studies in a Brassicaceae Panel.- Methods for Functional Physiological Phenotyping and High-Order Data Quantification.- Physiotyping of Plants and Modeling the Soil Plant Atmospheric Continuum (SPAC).- Root Hair Imaging Using Confocal Microscopy.- Cytogenetic Bioindication in Root Meristems for Vitality Assessment of Trees.- Genetic Diversity Assessment in Plants from Reduced Representation Sequencing Data.- Identification of Novel Induced Mutations in Seed and Vegetatively Propagated Plants from Reduced Representation or Whole Genome Sequencing Data.- Identification of Induced Copy Number Variation from Low Coverage Sequence Data.- Genetic Map Construction Using F₂ and RIL/DH Mapping Population.- QTL Mapping Using RIL Population.- Sample and Library Preparation for PacBio Long Read Sequencing in Grapevine.- RNA Isolation Method in Marginal Crops with High Agronomic Potential.- A General Protocol for Gene Expression Analysis in Chemically Mutant Coffee Plants in Response to Rust (Hemileia vastatrix Berk & Broome) Infection.- Transcriptomic Data Analysis Using the Galaxy Platform: Coffee (Coffea arabica L.) Flowers as Example.- Quantitative Estimation of Promoter Activity in Cannabis sativa Using Agroinfiltration-Based Transient Gene Expression.- Indophenol Blue Colorimetric Method to Determine Grain Protein Content of Cereal Plants.- One-Dimensional Acrylamide Gel Electrophoresis for Analysis of Plant Samples.- Two-Dimensional Gel Electrophoresis for Separation of Plant Samples.- Sample Preparation and Phosphopeptide Enrichment for Plant Phosphoproteomics via Label-Free Mass Spectrometry.- Protein-Protein Interactions Visualized by Bimolecular Fluorescence Complementation in Arabidopsis thaliana Protoplasts from Leaf.- Determining Macromolecular Structures Using Cryo-Electron Microscopy.- Determining Protein Structures Using X-Ray Crystallography.