Plant breeding simulations with AlphaSimR

IF 2 3区 农林科学 Q2 AGRONOMY Crop Science Pub Date : 2024-08-20 DOI:10.1002/csc2.21312
Jon Bančič, Philip Greenspoon, R. Chris Gaynor, Gregor Gorjanc
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Abstract

Plant breeding plays a crucial role in the development of high-performing crop varieties that meet the demands of society. Emerging breeding techniques offer the potential to improve the precision and efficiency of plant breeding programs; however, their optimal implementation requires refinement of existing breeding programs or the design of new ones. Stochastic simulations are a cost-effective solution for testing and optimizing new breeding strategies. The aim of this paper is to provide an introduction to stochastic simulation with software AlphaSimR for plant breeding students, researchers, and experienced breeders. We present an overview of how to use the software and provide an introductory AlphaSimR vignette as well as complete AlphaSimR scripts of breeding programs for self-pollinated, clonal, and hybrid crops, including relevant breeding techniques, such as backcrossing, speed breeding, genomic selection, index selection, and others. Our objective is to provide a foundation for understanding and utilizing simulation software, enabling readers to adapt the provided scripts for their own use or even develop completely new plant breeding programs. By incorporating simulation software into plant breeding education and practice, the next generation of plant breeders will have a valuable tool in their quest to provide sustainable and nutritious food sources for a growing population.
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利用 AlphaSimR 进行植物育种模拟
植物育种在开发满足社会需求的高性能作物品种方面发挥着至关重要的作用。新兴的育种技术为提高植物育种计划的精确性和效率提供了潜力;然而,这些技术的优化实施需要对现有育种计划进行改进或设计新的育种计划。随机模拟是测试和优化新育种策略的一种经济有效的解决方案。本文旨在向植物育种专业的学生、研究人员和经验丰富的育种人员介绍使用 AlphaSimR 软件进行随机模拟的方法。我们概述了如何使用该软件,并提供了 AlphaSimR 的入门小节以及自花授粉、克隆和杂交作物育种程序的完整 AlphaSimR 脚本,包括回交、快速育种、基因组选择、指数选择等相关育种技术。我们的目标是为理解和使用模拟软件奠定基础,使读者能够根据自己的需要调整所提供的脚本,甚至开发全新的植物育种程序。通过将模拟软件纳入植物育种教育和实践,下一代植物育种家将拥有一个宝贵的工具,为不断增长的人口提供可持续的营养食品来源。
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来源期刊
Crop Science
Crop Science 农林科学-农艺学
CiteScore
4.50
自引率
8.70%
发文量
197
审稿时长
3 months
期刊介绍: Articles in Crop Science are of interest to researchers, policy makers, educators, and practitioners. The scope of articles in Crop Science includes crop breeding and genetics; crop physiology and metabolism; crop ecology, production, and management; seed physiology, production, and technology; turfgrass science; forage and grazing land ecology and management; genomics, molecular genetics, and biotechnology; germplasm collections and their use; and biomedical, health beneficial, and nutritionally enhanced plants. Crop Science publishes thematic collections of articles across its scope and includes topical Review and Interpretation, and Perspectives articles.
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