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This volume looks at the latest techniques used by researchers to help them understand the biology of various cellular processes and agronomic traits, and come up with better strategies to improve legume crops. The chapters in this book cover topics such as legume genomic resources; legume pangenome and organelle genome construction; transcriptome analysis; DNA methylation analysis; double-digest restriction site-associated DNA sequencing; target enrichment sequencing via probe capture; genomic selection and transformation methods; prediction of long non-coding RNAs and secondary structures; genome-wide mining of disease resistance gene analogs; genome editing, and bioactive compound and phosphoproteome analysis. 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 tips on troubleshooting and avoiding known pitfalls.
Cutting-edge and informative, Legume Genomics: Methods and Protocols is a useful reference for genomicists, molecular breeders, plant molecular biologists, biotechnologists, computational biologists, and developmental biologists. This book is also an excellent resource for any novice and expert researcher involved in various molecular aspects of legume biology or general plant studies.
List of contents
Updates on Legume Genome Sequencing.- Updates on Genomic Resources in Chickpea for Crop Improvement.- Legume Pangenome Construction using an Iterative Mapping and Assembly Approach.- Methods and Tools for Plant Organelle Genome Sequencing, Assembly and Downstream Analysis.- Methods of Gene Expression Profiling to Understand Abiotic Stress Perception and Response in Legume Crops.- Method for Bisulphite Sequencing Data Analysis for Whole Genome Level DNA Methylation Detection in Legumes.- Method for Genome-Wide Association Study: A Soybean Example.- Genotyping for Species Identification and Diversity Assessment using Double-Digest Restriction Site-Associated DNA Sequencing (ddRAD-seq).- Functional Genomic Selection in Crop Breeding.- Methods for Target Enrichment Sequencing via Probe Capture in Legumes.- Developing Transposable Element Marker System for Molecular Breeding.- Machine-Learning Based Annotation of Long Non-Coding RNAs using PLncPRO.- Methods for Identification and Validation of G-Quadruplex Sequences in Legumes.- Method for Characterization of Root Traits in Chickpea Germplasm for Legume Genomics and Breeding.- Method of Screening Legume Crops for Abiotic Stress Tolerance through Physiological and Biochemical Approaches.- An Efficient Method of Mitochondrial DNA Isolation from Vigna radiata for Genomic Studies.- Embryonic Explant and Plumular Meristem Transformation Methods for Development of Transgenic Pigeonpea.- Optimization of Hairy Root Transformation for the Functional Genomics in Chickpea: A Platform for Nodule Developmental Studies.- CRISPR/Cas9-Based Gene Editing in Soybean.- Genome-Wide Mining of Disease Resistance Gene Analogs using Conserved Domains.- Determination of Bioactive Compounds of Fenugreek (Trigonella foenum-graecum) Seeds using LC-MS Techniques.- Quantitative Phosphoproteomic Analysis of Legume using TiO2-Based Enrichment Coupled with Isobaric Labeling.
