High-Throughput Root Phenotyping of Maize Seedlings

Imaging has revolutionized phenotyping analysis by providing accurate documentation and records of observed phenotypes. Analyzing imaging data remains a major bottleneck in root phenotyping analysis. Advances in technology offer a plethora of analysis options at varying automation levels and price points, providing a reliable open-source pipeline for image analysis that delivers stable, reproducible results. Here, we discuss a maize seedling image analysis pipeline powered by open-source tools that enables rapid analysis of seedling root phenotypes. This image analysis pipeline uses Root Painter, an optional AI cleanup step, and RhizoVision Explorer to extract phenotypic data from maize seedlings grown on rolled towel assays, which are commonly used, enabling rapid analysis of these images.