Cover -- Title Page -- Copyright Page -- Contents -- List of Contributors -- Chapter 1 Dani Zamir: Pioneer in Tomato Genetics and Quantitative Trait Dissection -- ABSTRACT -- OUTLINE -- ABBREVIATIONS -- I. INTRODUCTION -- II. UNDERSTANDING QUANTITATIVE GENETIC VARIATION -- III. CLONING OF QUANTITATIVE TRAIT LOCI -- IV. CHARACTERIZATION OF GENETIC PHENOMENA -- V. SEQUENCING THE TOMATO GENOME -- VI. PRACTICAL PLANT BREEDING -- VII. SCIENTIFIC IMPACT -- VIII. LIST OF SCIENTIFIC JOURNAL PUBLICATIONS OF DANI ZAMIR -- ACKNOWLEDGMENTS -- LITERATURE CITED -- Chapter 2 Muscadine Grape Breeding -- ABSTRACT -- OUTLINE -- I. INTRODUCTION -- A. Taxonomy and Distribution Range -- B. Differences Between Subgenus Muscadinia and Subgenus Vitis -- C. Cultivation and Industry Development -- II. HISTORY OF IMPROVEMENT -- A. Native Germplasm -- B. Historical Breeding Efforts -- III. BREEDING TECHNIQUES -- A. Reproductive Biology of Muscadinia -- B. Crossing Technique -- C. Seedling Growth and Evaluation -- IV. MOLECULAR BREEDING RESOURCES -- A. DNA Fingerprinting and Pedigree Analysis -- B. Genetic Linkage Maps and Reference Genomes -- C. Quantitative Trait Loci and Markers for Traits of Interest -- V. BREEDING FOR SPECIFIC CHARACTERS -- A. Flower Type -- B. Yield and Vigor -- C. Berry Size -- D. Berry Color and Anthocyanin Composition -- E. Berry Quality -- F. Cold Hardiness -- G. Pest Resistance -- H. Dry Stem Scar -- I. Ornamental Traits -- J. Phytochemical Content -- VI. INTERSUBGENERIC HYBRIDIZATION -- A. Early History and Approaches -- B. Breeding Vitis × Muscadinia Hybrids at the Tetraploid Level -- C. Cytogenetic and Molecular Basis for Incompatibility in Vitis × Muscadinia Crosses -- D. Bunch Grapes with Disease Resistance Introgressed from Muscadinia -- E. Muscadine Grapes with Fruit Quality Traits Introgressed from Subgenus Vitis -- VII. FUTURE PROSPECTS.

II. TAXONOMY AND DOMESTICATION OF HEMP -- III. SEX DETERMINATION IN HEMP -- A. Dioecy and Monoecy -- B. Manipulation of Sex -- IV. CONTROL OF POLLINATION -- A. Field Pollination -- B. Indoor Pollination -- C. Seed Harvest and Storage -- V. BREEDING AND SELECTION SCHEMES -- A. Types of Hemp Cultivars -- B. Recurrent Bulk Selection -- C. Pedigree Selection -- D. Hybrids -- E. Synthetic Cultivars -- F. Clones -- VI. TARGET TRAITS FOR GENETIC IMPROVEMENT -- A. Cannabinoid Chemotype and Concentration -- B. Flowering Time -- C. Host Plant Resistance -- D. Grain Yield and Quality -- E. Fiber and Hurd Yield and Quality -- F. Seed Quality, Germination, and Establishment -- VII. GERMPLASM RESOURCES -- VIII. GENOMIC RESOURCES -- IX. FUTURE DIRECTIONS -- ACKNOWLEDGMENTS -- LITERATURE CITED -- Chapter 6 Genetic Resources and Breeding Priorities in Phaseolus Beans: Vulnerability, Resilience, and Future Challenges -- ABSTRACT -- OUTLINE -- ABBREVIATIONS -- I. DESCRIPTION OF CROP VULNERABILITY AND ITS RELEVANCE IN PHASEOLUS -- II. BACKGROUND ON THE ORIGIN, DIVERSIFICATION, AND DOMESTICATION OF THE GENUS PHASEOLUS -- A. Economic, Nutritional, and Cultural Roles -- B. Origin and Diversification of Phaseolus spp. -- III. URGENCY AND EXTENT OF CROP VULNERABILITIES AND THREATS TO FOOD SECURITY -- A. Genetic Uniformity and Standing Diversity: A Closer Look at Potential Phaseolus Vulnerability in the United States -- IV. GENETIC EROSION IN THE CENTERS OF ORIGIN -- A. Current and Emerging Biotic, Abiotic, Production, and Dietary Threats and Needs -- V. STATUS OF PLANT GENETIC RESOURCES IN THE NPGS -- A. Germplasm Collections -- B. The Need for Microbial Germplasm Collections -- C. Plant Genetic Resources Research Associated with NPGS -- D. Phaseolus Explorations Over Time -- VI. GENOMIC AND GENOTYPIC CHARACTERIZATION DATA -- A. Genome-Wide Reference Sequences.

B. SNPs as the Currently Preferred Markers -- C. Recent Whole-Genome Diversity Studies -- D. Phenotypic Evaluation Data -- E. The Need for Genotypic Characterization of Germplasm Collections -- VII. PROSPECTS, FUTURE DEVELOPMENT, AND GAPS IN GENETIC DIVERSITY -- A. In Situ and Ex Situ Conservation of Phaseolus Genetic Resources -- B. Addressing Bean Crop Vulnerability Through Breeding -- C. Limitations in Available Genetic Diversity and Utilization -- D. Expanding Demand for Phaseolus Beans Through Development of Consumer-Friendly Convenience Foods -- E. Role of Transgenic Technology and Gene Editing -- VIII. EPILOGUE -- ACKNOWLEDGMENTS -- LITERATURE CITED -- Chapter 7 Club Wheat -- A Review of Club Wheat History, Improvement, and Spike Characteristics in Wheat -- ABSTRACT -- OUTLINE -- ABBREVIATIONS -- I. INTRODUCTION -- II. SPIKE ARCHITECTURE IN GRASSES -- III. CLUB WHEAT HISTORY -- A. Origins -- B. Migration of Club Wheat -- C. Club Wheat in the Americas -- D. Club Wheat Comes to the Pacific Northwest -- IV. CLUB WHEAT BREEDING -- A. Disease Resistance -- B. Agronomics -- C. Quality -- V. MAJOR GENES FOR CONTROL OF SPIKE CHARACTERSITICS IN WHEAT -- A. Domestication and Free Threshing -- B. Compact Spike -- C. Influence of Q on Spike Compactness -- D. Additional Compactness Loci in Triticum -- E. Quantitative Variation for Spike Traits -- VI. CONCLUSION -- ACKNOWLEDGMENTS -- LITERATURE CITED -- Chapter 8 Predicting Genotype × Environment × Management (G × E × M) Interactions for the Design of Crop Improvement Strategies: Integrating Breeder, Agronomist, and Farmer Perspectives -- ABSTRACT -- OUTLINE -- ABBREVIATIONS -- I. THREE PERSPECTIVES OF G × E × M INTERACTIONS -- II. FOUNDATIONS FOR G × E × M PREDICTION -- III. THE BREEDER'S EQUATION AND BEYOND -- IV. G × E × M CONSIDERATIONS FOR DESIGNING MULTI-ENVIRONMENT TRIALS.

A. Sampling Genotype, Environment, and Management Dimensions -- B. Breeding-Agronomy Analysis Perspectives -- C. Farmer Analysis Perspectives -- D. MET-TPE Alignment -- V. BREEDER'S QUESTIONS: G × E × M → G × (E × M) -- VII. FARMER'S QUESTIONS: G × E × M → (G × M) × E -- VIII. INTEGRATING THE DIFFERENT G × E × M PERSPECTIVES -- IX. G × E × M PREDICTIONS BEYOND THE TRAINING DATA BOUNDARIES -- X. PREDICTION-BASED CROP IMPROVEMENT: FUTURE PROSPECTS -- ACKNOWLEDGMENTS -- LITERATURE CITED -- Chapter 9 Root Phenes for Improving Nutrient Capture in Low-Fertility Environments -- ABSTRACT -- OUTLINE -- ABBREVIATIONS -- I. THE NEED FOR NUTRIENT-EFFICIENT CROPS -- II. ROOT PHENES ARE IMPORTANT FOR RESOURCE AQUSITION AND PLANT GROWTH -- A. Root Architectural Phenes -- B. Root Anatomical Phenes -- C. Integrated Phenotypes -- D. Phenotypic Plasticity -- III. ROOT IDEOTYPES FOR IMPROVED NUTRIENT ACQUISITION -- A. Nitrogen -- B. Phosphorus -- C. Potassium -- D. Calcium -- E. Magnesium -- F. Sulfur -- G. Iron -- H. Zinc -- IV. PHENOTYPING METHODOLOGY AND TECHNOLOGY -- V. DEPLOYMENT STRATEGIES FOR ROOT PHENES IN CROP BREEDING PROGRAMS -- A. Ideotype and Speed Breeding -- B. Genetic Architecture of Roots Is Complex -- C. Controlled vs. Field Environments -- VI. CONCLUSIONS -- LITERATURE CITED -- Chapter 10 Role of the Genomics-Phenomics-Agronomy Paradigm in Plant Breeding -- ABSTRACT -- OUTLINE -- ABBREVIATIONS -- I. INTRODUCTION -- II. AGRONOMY AND GENOMICS (A-G) -- III. GENOMICS AND PHENOMICS (G-P) -- IV. PHENOMICS AND AGRONOMY (P-A) -- V. MERGE G-P-A THROUGH GWAS -- VI. MERGE G-P-A THROUGH BLUP -- VII. MERGE G-P-A THROUGH BAYESIAN METHODS -- VIII. MERGE G-P-A THROUGH ML -- IX. CONCLUSION AND FUTURE PROSPECTS -- ACKNOWLEDGMENT -- LITERATURE CITED -- Cumulative Contributor Index -- Cumulative Subject Index -- EULA.