Leveraging Automated Machine Learning for Environmental Data-Driven Genetic Analysis and Genomic Prediction in Maize Hybrids

文献类型： 外文期刊

第一作者： He, Kunhui

作者： He, Kunhui;Yu, Tingxi;Gao, Shang;Chen, Shoukun;Li, Liang;Zhang, Xuecai;Huang, Changling;Xu, Yunbi;Wang, Jiankang;Li, Xinhai;Li, Huihui;He, Kunhui;Yu, Tingxi;Gao, Shang;Chen, Shoukun;Zhang, Xuecai;Huang, Changling;Wang, Jiankang;Li, Huihui;Zhang, Xuecai;Hearne, Sarah;Prasanna, Boddupalli M.

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关键词： environmental data; genetic analysis; genomic selection; genotype-by-environment interactions; machine learning

期刊名称：ADVANCED SCIENCE （ 影响因子：14.1； 五年影响因子：15.6 ）

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年卷期： 2025 年 12 卷 17 期

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收录情况： SCI

摘要： Genotype, environment, and genotype-by-environment (GxE) interactions play a critical role in shaping crop phenotypes. Here, a large-scale, multi-environment hybrid maize dataset is used to construct and validate an automated machine learning framework that integrates environmental and genomic data for improved accuracy and efficiency in genetic analyses and genomic predictions. Dimensionality-reduced environmental parameters (RD_EPs) aligned with developmental stages are applied to establish linear relationships between RD_EPs and traits to assess the influence of environment on phenotype. Genome-wide association study identifies 539 phenotypic plasticity trait-associated markers (PP-TAMs), 223 environmental stability TAMs (Main-TAMs), and 92 GxE-TAMs, revealing distinct genetic bases for PP and GxE interactions. Training genomic prediction models with both TAMs and RD_EPs increase prediction accuracy by 14.02% to 28.42% over that of genome-wide marker approaches. These results demonstrate the potential of utilizing environmental data for improving genetic analysis and genomic selection, offering a scalable approach for developing climate-adaptive maize varieties.

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