Cassava root crown phenotyping using three-dimension (3D) multi-view stereo reconstruction

Abstract

Phenotypic analysis of cassava root crowns (CRCs) so far has been limited to visual inspection and very few measurements due to its laborious process in the field. Here, we developed a platform for acquiring 3D CRC models using close-range photogrammetry for phenotypic analysis. The state of the art is a low cost and easy to set up 3D acquisition requiring only a background sheet, a reference object and a camera, compatible with field experiments in remote areas. We tested different software with CRC samples, and Agisoft and Blender were the most suitable software for generating high-quality 3D models and data analysis, respectively. We optimized the workflow by testing different numbers of images for 3D reconstruction and found that a minimum of 25 images per CRC can provide high quality 3D models. Up to ten traits, including 3D crown volumes, 3D crown surface, root density, surface-to-volume ratio, root numbers, root angle, crown diameter, cylinder soil volume, CRC compactness and root length can be extracted providing novel parameters for studying cassava storage roots. We applied this platform to partial-inbred cassava populations and demonstrated that our platform provides reliable 3D CRC modelling for phenotypic analysis, analysis of genetic variances and supporting breeding selection.

Plant phenotyping relevance

キャッサバ根冠の3D画像取得・再構成プラットフォームを開発し、複数の形態形質を抽出・最適化・検証しており、表現型取得手法が研究の中心である。

Code and data availability

The article describes a 3D photogrammetry phenotyping platform for cassava root crowns, but no paper-specific public dataset, image collection, analysis code, or trained model is deposited with an authors' public URL. The only URLs mentioned (Agisoft, Blender, CassavaBase) are generic third-party software/database, not

No evidence-backed public reproduction asset is currently recorded.