Table of Contents

Contributors ix

1. Daniel Zohary: Geneticist and Explorer of Plant Domestication 1
Giora Simchen

I. Early Days 2

II. Genetic Relationships among Related Plant Species 3

III. Domestication of Crops and Fruit Trees 4

IV. The Scientific Approach and Methodology of Daniel Zohary 6

V. The Book 7

VI. Awards, Honors, and Recognition 8

VII. Personality 9

Literature Cited and Selected Publications of Daniel Zohary 10

2. The Use of Association Genetics Approaches in Plant Breeding 17
María F. Álvarez, Teresa Mosquera, and Matthew W. Blair

I. Introduction 19

II. Advantages of Association Mapping Approaches 20

III. Methods of Association Genetics 26

IV. Examples of Association Mapping 34

V. Software for Data Analysis 46

VI. Association Mapping Compared with Linkage Mapping 48

VII. Genome-Wide Selection and Genomic Selection 52

VIII. Outlook 54

Acknowledgments 57

Literature Cited 57

3. Epigenetics Connects the Genome to Its Environment 69
Ray A. Bressan, Jian-Kang Zhu, Michael J. Van Oosten, Albino Maggio, Hans J. Bohnert, and Viswanathan Chinnusamy

I. Introduction 71

II. Historical Perspective and Conceptual Framework 72

III. Epigenetics 80

IV. Epigenetic Memory 90

V. Sex, Epigenetics, and the Genome 93

VI. Adaptation is a Form of Development 102

VII. Evolution: The Engine of Ideas 108

Acknowledgments 121

Literature Cited 121

4. Peanut Improvement for Human Health 143
Sangam Dwivedi, Naveen Puppala, Soheila Maleki, Peggy Ozias-Akins, and Rodomiro Ortiz

I. Introduction 146

II. Genetic Variability for Nutritional Traits 149

III. Peanut Allergens 153

IV. Predicting Seed Quality and Allergens 156

V. Genetic and Molecular Bases of High Oleate Trait 159

VI. Sequencing the Peanut Genome and Implications in Breeding 159

VII. Transgene(s) to Produce Nutrient-Dense and Toxin and Allergen-Free Peanuts 161

VIII. Breeding Opportunities 165

IX. Outlook 169

Acknowledgments 171

Literature Cited 171

5. Rice Breeding in Latin America 187
César P. Martínez, Edgar A. Torres, Marc Chatel, Gloria Mosquera, Jorge Duitama, Manabu Ishitani, Michael Selvaraj, Beata Dedicova, Joe Tohme, Cécile Grenier, Mathias Lorieux, Maribel Cruz, Luis Berrío, Edgar Corredor, Gonzalo Zorrilla de San Martin, Flavio Breseghello, Orlando Peixoto, Jose Manoel Colombari Filho, Adriano Pereira de Castro, Sergio Iraçu Gindri Lopes, Mara Barbosa, Gustavo Rodrigo Daltrozzo Funck, Pedro Blanco, Fernando Pérez de Vida, Federico Molina, Juan Rosas, Sebastián Martínez, Victoria Bonnecarrere, Silvia Garaycochea, Gonzalo Carracelas, Alfredo Marin, Fernando Correa-Victoria, Ismael Camargo, and Carlos Bernardo Bruzzone

I. Introductory Remarks 192

II. The CIAT Rice Program 194

III. Advances in Population Improvement in Latin America and the Caribbean 202

IV. Genetics and Genomics Approaches to Improve Rice Breeding 206

V. Breeding for Resistance to Rice Pathogens 216

VI. Breeding for Adaptation to Abiotic Stresses 223

VII. Hybrid Rice Breeding 230

VIII. Rice Breeding Programs 234

IX. Perspectives and Future Directions 265

Literature Cited 266

Subject Index 279

Cumulative Subject Index 281

Cumulative Contributor Index 307

About the Author

Jules Janick is James Troop Distinguished Professor in Horticulture within the Department of Horticulture & Landscape Architecture at Purdue University in West Lafayette, IN, USA.