Role of the Genomics–Phenomics–Agronomy Paradigm in Plant Breeding

Chapter 10 Role of the Genomics–Phenomics–Agronomy Paradigm in Plant Breeding Chunpeng James Chen, Chunpeng James Chen School of Animal Sciences, Virginia Tech, Blacksburg, VA, USASearch for more papers by this authorJessica Rutkoski, Jessica Rutkoski Department of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, IL, USASearch for more papers by this authorJames C. Schnable, James C. Schnable Department of Agronomy and Horticulture, University of Nebraska-Lincoln, Lincoln, NE, USASearch for more papers by this authorSeth C. Murray, Seth C. Murray Department of Soil and Crop Sciences, Texas A&M University, College Station, College Station, TX, USASearch for more papers by this authorLizhi Wang, Lizhi Wang Department of Industrial and Manufacturing Systems Engineering, Iowa State University, Ames, IA, USASearch for more papers by this authorXiuliang Jin, Xiuliang Jin Ministry of Agriculture, Chinese Academy of Agricultural Sciences/Key Laboratory of Crop Physiology and Ecology, Institute of Crop Sciences, Beijing, ChinaSearch for more papers by this authorBenjamin Stich, Benjamin Stich Institute for Quantitative Genetics and Genomics of Plants, Heinrich Heine University, Düsseldorf, GermanySearch for more papers by this authorJose Crossa, Jose Crossa Biometrics and Statistics Unit, International Maize and Wheat Improvement Center (CIMMYT), Texcoco, MéxicoSearch for more papers by this authorBen J. Hayes, Ben J. Hayes Queensland Alliance for Agriculture and Food Innovation, University of Queensland, Brisbane, Queensland, AustraliaSearch for more papers by this authorZhiwu Zhang, Zhiwu Zhang Department of Crop and Soil Sciences, Washington State University, Pullman, WA, USASearch for more papers by this author Chunpeng James Chen, Chunpeng James Chen School of Animal Sciences, Virginia Tech, Blacksburg, VA, USASearch for more papers by this authorJessica Rutkoski, Jessica Rutkoski Department of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, IL, USASearch for more papers by this authorJames C. Schnable, James C. Schnable Department of Agronomy and Horticulture, University of Nebraska-Lincoln, Lincoln, NE, USASearch for more papers by this authorSeth C. Murray, Seth C. Murray Department of Soil and Crop Sciences, Texas A&M University, College Station, College Station, TX, USASearch for more papers by this authorLizhi Wang, Lizhi Wang Department of Industrial and Manufacturing Systems Engineering, Iowa State University, Ames, IA, USASearch for more papers by this authorXiuliang Jin, Xiuliang Jin Ministry of Agriculture, Chinese Academy of Agricultural Sciences/Key Laboratory of Crop Physiology and Ecology, Institute of Crop Sciences, Beijing, ChinaSearch for more papers by this authorBenjamin Stich, Benjamin Stich Institute for Quantitative Genetics and Genomics of Plants, Heinrich Heine University, Düsseldorf, GermanySearch for more papers by this authorJose Crossa, Jose Crossa Biometrics and Statistics Unit, International Maize and Wheat Improvement Center (CIMMYT), Texcoco, MéxicoSearch for more papers by this authorBen J. Hayes, Ben J. Hayes Queensland Alliance for Agriculture and Food Innovation, University of Queensland, Brisbane, Queensland, AustraliaSearch for more papers by this authorZhiwu Zhang, Zhiwu Zhang Department of Crop and Soil Sciences, Washington State University, Pullman, WA, USASearch for more papers by this author Book Editor(s):Irwin Goldman, Irwin Goldman University of Wisconsin–Madison, Madison, Wisconsin, USASearch for more papers by this author First published: 18 November 2022 https://doi.org/10.1002/9781119874157.ch10 AboutPDFPDF ToolsRequest permissionExport citationAdd to favoritesTrack citation ShareShareShare a linkShare onFacebookTwitterLinked InRedditWechat Summary Plant breeding primarily focuses on improving agronomy traits, e.g. yield, quality, host plant resistance to pathogens and pests, and abiotic stress tolerance; however, the methods for their genetic improvement are being rapidly enhanced through genomics and phenomics. In the Genomics–Phenomics–Agronomy (G-P-A) paradigm, diverse research approaches have been conducted to bridge any two of these elements, and recently, all of them together. This review first highlights the progress to link (1) genomics to agronomy, (2) genomics to phenomics, and (3) phenomics to agronomy. Secondly, the G-P-A domain is dissected into different layers, each addressing the three elements simultaneously. These layers include genetic dissection through gene mapping using genome-wide association studies and genomic selection using best linear unbiased prediction, Bayesian approaches, and machine learning. The objective of the review is to help readers to grasp the core developments among the exponentially growing literature in each of these fields. Through this review, the connections among the three elements of the G-P-A paradigm are coherently integrated toward the prospect of sustainable development of agronomy traits through both genomics and phenomics. Plant Breeding Reviews, Volume 46 RelatedInformation