3D visualization and volume based quantification of rice chalkiness in vivo by using high resolution micro-CT

Abstract

Abstract Background: Rice quality research attracts attention worldwide. Rice chalkiness is one of the key indexes determining rice kernel quality. The traditional rice chalkiness measurement methods are mainly based on naked-eye observation or two-dimensional (2D) image analysis and the results could not represent the three-dimensional (3D) characteristics of chalkiness in the rice kernel. These methods are neither in vivo thus are unable to provide technical support for high throughput screening of rice chalkiness phenotype. Results: Here, we introduced a novel method for 3D visualization and accurate volume-based quantification of rice chalkiness in vivo by using X-ray microcomputed tomography (micro-CT). This approach not only develops a novel method to measure the rice chalkiness index, but also provides a high throughput solution for rice chalkiness phenotype analysis. Conclusions: Our method could be a new powerful tool for rice chalkiness measurement, which would greatly help the research of rice chalkiness traits as well as the quality evaluation in rice production practice.

Plant phenotyping relevance

イネ玄米の胴割れではなく白未熟粒（chalkiness）を、マイクロCTで3D可視化・体積定量する植物表現型取得法を開発しており、方法自体が中心的である。

Code and data availability

The preprint describes micro-CT based 3D quantification of rice chalkiness and mentions a supplementary file (3Dchalkiness.mp4) and the authors' Chalkiness 2.0 software, but no public dataset deposit, author analysis code, or trained model with an explicit authors' public URL is provided. The only paper-specific asset,

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