Plant Breeding Reviews -- Contents -- Contributors -- 1. Daniel Zohary: Geneticist and Explorer of Plant Domestication -- I. Early Days -- II. Genetic Relationships among Related Plant Species -- III. Domestication of Crops and Fruit Trees -- IV. The Scientific Approach and Methodology of Daniel Zohary -- V. The Book -- VI. Awards, Honors, and Recognition -- VII. Personality -- Literature Cited and Selected Publications of Daniel Zohary -- 2. The Use of Association Genetics Approaches in Plant Breeding -- I. Introduction -- II. Advantages of Association Mapping Approaches -- A. Principles of Association Genetics and Association Mapping -- B. Principles of Linkage Disequilibrium -- III. Methods of Association Genetics -- A. Sampling or Selection of Individuals for Population Analysis -- B. Population Genotyping -- C. Phenotypic Characterization of the Population for the Trait of Interest -- D. Assessment of the Association Between Genotypes and Phenotypes -- E. Determining the Level and Influence of Population Structure -- 1. Genome Control in Association Mapping -- 2. Structured Association and Model-Based Methods -- IV. Examples of Association Mapping -- A. Cereals -- B. Dicotyledenous Crops -- V. Software for Data Analysis -- A. Population Structure Determination -- B. Software Used for Population Association Mapping -- VI. Association Mapping Compared with Linkage Mapping -- A. Limitations -- B. Alternatives -- VII. Genome-Wide Selection and Genomic Selection -- VIII. Outlook -- Acknowledgments -- Literature Cited -- 3. Epigenetics Connects the Genome to Its Environment -- I. Introduction -- II. Historical Perspective and Conceptual Framework -- A. The Distribution of Natural Biodiversity -- B. Genotypes and Phenotypes -- C. Gene Expression and Phenotype: The Mystery of Genetic Memory -- D. The Rebirth of Epigenetics -- III. Epigenetics.

A. Epigenetics: The Softer Side of Genetics -- B. The Role of the Environment in Evolution -- C. Transgenerational Epigenetics -- D. Growth Is a Common Phenotypic Link Between Plant and Animal Epigenetics -- E. The Relationship of Genetics with Epigenetics: Resetting During Development -- F. Epigenetic Control of Development and Evolution -- IV. Epigenetic Memory -- A. Alternation of Generations -- B. Ontogenic Programs -- V. Sex, Epigenetics, and the Genome -- A. Origins of Complex Ontogeny -- B. Gene Silencing and Defense -- C. Sex and Genome Invasion -- VI. Adaptation is a Form of Development -- A. Environment Adaptation Modifies Development by Heterochrony -- B. Dormancy: The Original Developmental Environmental Defense Program -- C. The Ping-Pong Strategy of Sex and Adapting to the Environment -- D. The Ping-Pong Trigger -- E. Beyond the Ping-Pong Model -- VII. Evolution: The Engine of Ideas -- A. Epigenetic Changes, Germ Cells, and the Environment -- B. Extreme Environments and Emergent Genetics -- Acknowledgments -- Literature Cited -- 4. Peanut Improvement for Human Health -- I. Introduction -- II. Genetic Variability for Nutritional Traits -- A. Oil and Oil Quality -- 1. Oil Content -- 2. Oil Quality -- B. Tocopherol -- C. Iron and Zinc -- D. Bioactive Compounds -- III. Peanut Allergens -- IV. Predicting Seed Quality and Allergens -- A. Oil and Oil Quality -- B. Mineral -- C. β-Carotene -- D. Allergen -- V. Genetic and Molecular Bases of High Oleate Trait -- VI. Sequencing the Peanut Genome and Implications in Breeding -- VII. Transgene(s) to Produce Nutrient-Dense and Toxinand Allergen-Free Peanuts -- A. β-Carotene -- B. Aflatoxin -- C. Seed Protein Allergens -- D. Biosafety Issues -- VIII. Breeding Opportunities -- IX. Outlook -- Acknowledgments -- Literature Cited -- 5. Rice Breeding in Latin America -- I. Introductory Remarks.

II. The CIAT Rice Program -- A. History of the CIAT Rice Program -- B. Impacts of the CIAT Rice Breeding Program -- 1. Core Breeding Collection, Breeding Strategies, and Methodologies -- 2. Strong and Regionally Relevant Rice Improvement Program Through Productive Partnerships -- 3. Integration of Different Disciplines in Variety Development -- 4. Collaboration Among CIAT's Regional Programs, National Rice Research Programs, and International Institutions -- 5. Training and Capacity-Building Programs -- C. The Way Forward -- III. Advances in Population Improvement in Latin America and the Caribbean -- A. Population Improvement in Latin America and the Caribbean -- B. New Advances in Rice Population Improvement -- C. Expanding LAC Rice Population Improvement Experiences -- IV. Genetics and Genomics Approaches to Improve Rice Breeding -- A. DNA Marker Technologies -- B. QTL and Gene Mapping -- 1. Genetics of Interspecific Hybrid Sterility -- 2. Mapping of QTLs with Resistance to RHBV -- 3. Detecting QTLs for Resistance to Rice Stripe Necrosis Virus (RSNV) and Yield Components -- 4. Genome-Wide Association Studies -- 5. Nested Association Mapping -- C. Marker-Assisted Breeding -- 1. MABC for Resistance to RHBV -- 2. Wild Introgressions -- 3. Interspecific Bridges -- 4. Universal Core Genetic Map -- 5. Genomic Selection -- D. Germplasm Characterization by Resequencing -- E. Functional Genomics -- F. Software Development -- G. Outlook -- V. Breeding for Resistance to Rice Pathogens -- A. Breeding for Rice Host Plant Resistance -- 1. Rice Blast -- 2. RHBV -- B. Perspectives -- VI. Breeding for Adaptation to Abiotic Stresses -- A. Abiotic Stresses in Rice -- 1. Description and Impact -- 2. Approaches to Evaluating Abiotic Stresses -- B. Breeding for Adaptation to Abiotic Stresses -- 1. Conventional Crossbreeding -- 2. Molecular Breeding.

VII. Hybrid Rice Breeding -- A. Hybrid Rice and Direct Seeding -- B. Germplasm and Breeding Methods -- C. The CIAT Rice Program on Hybrid Rice -- D. Concluding Remarks -- VIII. Rice Breeding Programs -- A. The FLAR Breeding Program for Latin America and the Caribbean -- B. Breeding for Irrigated Conditions in Rio Grande do Sul, Brazil -- 1. Origin and Genealogy of Cultivars Developed by IRGA -- 2. Progress in Yield Potential Shown by IRGA Cultivars -- 3. Breeding for Tolerance of Iron Toxicity and Adaptation to the Pregerminated Crop Production System -- 4. Advances in Grain Quality -- 5. Advances Related to Blast Resistance -- 6. Future Perspectives -- C. Breeding for Upland Conditions in Brazil -- 1. The Importance of Upland Rice in Brazil -- 2. Landmark Upland Rice Cultivars in Brazil -- 3. Methodological Improvements -- 4. Genetic Gain -- 5. Characteristics of Brazilian Upland Rice Cultivars -- 6. Future Challenges -- D. Rice Breeding in Uruguay -- 1. Rice Production in Uruguay -- 2. Evolution of Grain Yield -- 3. Rice Cultivars -- 4. Rice Breeding Programs -- 5. Cultivar Development -- 6. Future Challenges -- E. Rice Breeding in Argentina -- 1. History -- 2. Objectives -- 3. Achievements -- F. Rice Breeding in Peru -- 1. History -- 2. Main Constraints and Breeding Objectives -- 3. Breeding Methods -- G. Rice Breeding in Central America -- 1. Interinstitutional Collaboration -- 2. The Contributions of Rice Farming Research in Panama -- 3. Varietal Releases -- 4. Next Steps -- IX. Perspectives and Future Directions -- Literature Cited -- Subject Index -- Cumulative Subject Index -- Cumulative Contributor Index -- End User License Agreement.