AutoGP: An intelligent breeding platform for enhancing maize genomic selection

作者：Hao Wu, Rui Han, Liang Zhao, Mengyao Liu, Hong Chen, Weifu Li, Lin Li · 发表于：Plant Communications · 年份：2025 · DOI：10.1016/j.xplc.2025.101240 · 被引用次数：41 · 研究领域：Genetic Mapping and Diversity in Plants and Animals、Genetics and Plant Breeding

In the face of climate change and the growing global population, there is an urgent need to accelerate the development of high-yielding crop varieties. To this end, vast amounts of genotype-to-phenotype data have been collected, and many machine learning (ML) models have been developed to predict phenotype from a given genotype. However, the requirement for high densities of single-nucleotide polymorphisms (SNPs) and the labor-intensive collection of phenotypic data are hampering the use of these models to advance breeding. Furthermore, recently developed genomic selection (GS) models, such as deep learning (DL), are complicated and inconvenient for breeders to navigate and optimize within their breeding programs. Here, we present the development of an intelligent breeding platform named AutoGP (http://autogp.hzau.edu.cn), which integrates genotype extraction, phenotypic extraction, and GS models of genotype-to-phenotype data within a user-friendly web interface. AutoGP has three main advantages over previously developed platforms: 1) an efficient sequencing chip to identify high-quality, high-confidence SNPs throughout gene-regulatory networks; 2) a complete workflow for extraction of plant phenotypes (such as plant height and leaf count) from smartphone-captured video; and 3) a broad model pool, enabling users to select from five ML models (support vector machine, extreme gradient boosting, gradient-boosted decision tree, multilayer perceptron, and random forest) and four c...